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Liu D, Song X, Hu J, Liu Y, Wang C, Henkin Z. Precipitation affects soil nitrogen fixation by regulating active diazotrophs and nitrate nitrogen in an alpine grassland of Qinghai-Tibetan Plateau. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 919:170648. [PMID: 38336078 DOI: 10.1016/j.scitotenv.2024.170648] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/26/2023] [Revised: 01/27/2024] [Accepted: 01/31/2024] [Indexed: 02/12/2024]
Abstract
Soil asymbiotic nitrogen (N) fixation provides a critical N source to support plant growth in alpine grasslands, and precipitation change is expected to lead to shifts in soil asymbiotic N fixation. However, large gaps remain in understanding the response of soil asymbiotic N fixation to precipitation gradients. Here we simulated five precipitation gradients (10 % (0.1P), 50 % (0.5P), 70 % (0.7P), 100 % (1.0P) and 150 % (1.5P) of the natural precipitation) in an alpine grassland of Qinghai-Tibetan Plateau and examined the soil nitrogenase activity and N fixation rate for each gradient. Quantitative PCR and high-throughput sequencing were used to measure the abundance and community composition of the soil nifH DNA (total diazotrophs) and nifH RNA reverse transcription (active diazotrophs) gene. Our results showed that the soil diazotrophic abundance, diversity and nifH gene expression rate peaked under the 0.5P. Soil nitrogenase activity and N fixation rate varied in the range 0.032-0.073 nmol·C2H4·g-1·h-1 and 0.008-0.022 nmol·N2·g-1·h-1 respectively, being highest under the 0.5P. The 50 % precipitation reduction enhanced the gene expression rates of Azospirillum and Halorhodospira which were likely responsible for the high N fixation potential. The 0.5P treatment also possessed a larger and more complex active diazotrophic network than the other treatments, which facilitated the resistance of diazotrophic community to environmental stress and thus maintained a high N fixation potential. The active diazotrophic abundance had the largest positive effect on soil N fixation, while nitrate nitrogen had the largest negative effect. Together, our study suggested that appropriate precipitation reduction can enhance soil N fixation through promoting the abundance of the soil active diazotrophs and decreasing soil nitrate nitrogen, and soil active diazotrophs and nitrate nitrogen should be considered in predicting soil N inputs in the alpine grassland of Qinghai-Tibetan Plateau under precipitation change.
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Affiliation(s)
- Dan Liu
- Provincial key laboratory for alpine grassland conservation and utilization on Qinghai-Tibetan Plateau, Institute of Qinghai-Tibetan Plateau Research, Southwest Minzu University, Chengdu 610041, China.
| | - Xiaoyan Song
- Provincial key laboratory for alpine grassland conservation and utilization on Qinghai-Tibetan Plateau, Institute of Qinghai-Tibetan Plateau Research, Southwest Minzu University, Chengdu 610041, China
| | - Jian Hu
- Provincial key laboratory for alpine grassland conservation and utilization on Qinghai-Tibetan Plateau, Institute of Qinghai-Tibetan Plateau Research, Southwest Minzu University, Chengdu 610041, China
| | - Yang Liu
- Provincial key laboratory for alpine grassland conservation and utilization on Qinghai-Tibetan Plateau, Institute of Qinghai-Tibetan Plateau Research, Southwest Minzu University, Chengdu 610041, China
| | - Changting Wang
- Provincial key laboratory for alpine grassland conservation and utilization on Qinghai-Tibetan Plateau, Institute of Qinghai-Tibetan Plateau Research, Southwest Minzu University, Chengdu 610041, China
| | - Zalmen Henkin
- Department of Natural Resources, Newe Ya'ar Research Center, Agricultural Research Organization, Volcani Institute, Israel
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Zhao X, Hong JK, Park SY, Yun J, Jho EH. Stabilization of microbial network by co-digestion of swine manure and organic wastes. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2024; 355:120475. [PMID: 38447511 DOI: 10.1016/j.jenvman.2024.120475] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/05/2023] [Revised: 01/30/2024] [Accepted: 02/20/2024] [Indexed: 03/08/2024]
Abstract
The production of biogas from organic waste has attracted considerable interest as a solution to current energy and waste management challenges. This study explored the methane (CH4) production potential of swine manure (SM), food waste (FW), and tomato waste (TW) and the changes in the microbial community involved in the anaerobic digestion process. The results revealed that the CH4 production potentials of the four kinds of SM samples were influenced by the characteristics of SM (e.g., age and storage period). Among the four kinds of SM samples, the CH4 yield from the manure directly sampled from primiparous sows (SM3) was the highest. The CH4 yield was significantly improved when SM3 was co-digested with FW, but not with TW. The addition of SM fostered a stable CH4 production community by enhancing the interaction between methanogens and syntrophic bacteria. Furthermore, the addition of FW as a co-substrate may improve the functional redundancy structure of the methanogenesis-associated network. Overall, the characteristics of SM must be considered to achieve consistent CH4 yield efficiency from anaerobic digestion since CH4 production potentials of SM can be different. Also, the contribution of co-substrate to the synergistic relationship between methanogens and syntrophic bacteria can be considered when a co-substrate is selected in order to enhace CH4 yield from SM.
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Affiliation(s)
- Xin Zhao
- Department of Civil and Environmental Engineering, College of Engineering, Seoul National University, 1 Gwanak-ro, Gwanakgu, Seoul, 08826, Republic of Korea
| | - Jin-Kyung Hong
- Department of Environmental and Energy Engineering, Yonsei University, Wonju, 26493, Republic of Korea.
| | - So Yun Park
- Department of Agricultural Chemistry, Chonnam National University, Gwangju, 61186, Republic of Korea
| | - Jinhyeon Yun
- Department of Animal Science, Chonnam National University, Gwangju, 61186, Republic of Korea
| | - Eun Hea Jho
- Department of Agricultural Chemistry, Chonnam National University, Gwangju, 61186, Republic of Korea; Department of Agricultural and Biological Chemistry, Chonnam National University, Gwangju, 61186, Republic of Korea.
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Buenaño-Vargas C, Gagliano MC, Paulo LM, Bartle A, Graham A, van Veelen HPJ, O'Flaherty V. Acclimation of microbial communities to low and moderate salinities in anaerobic digestion. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 906:167470. [PMID: 37778560 DOI: 10.1016/j.scitotenv.2023.167470] [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: 07/14/2023] [Revised: 09/27/2023] [Accepted: 09/28/2023] [Indexed: 10/03/2023]
Abstract
In recent years anaerobic digestion (AD) has been investigated as suitable biotechnology to treat wastewater at elevated salinities. However, when starting up AD reactors with inocula that are not adapted to salinity, low concentrations of sodium (Na+) in the influent can already cause disintegration of microbial aggregates and wash-out. This study investigated biomass acclimation to 5 g Na+/L of two different non-adapted inocula in two lab-scale hybrid expanded granular sludge bed (EGSB)-anaerobic filter (AF) reactors fed with synthetic wastewater. After an initial biomass disintegration, new aggregates were formed relatively fast (i.e., after 95 days of operation), indicating microbial community adaptation. The newly formed microbial aggregates accumulated Na+ at the expense of calcium (Ca2+), but this did not hamper biomass retention or process performance. The hybrid reactor configuration, including a pumice stone filter in the upper section, and the low up-flow velocities applied, were key features for retaining the biomass within the system. This reactor configuration can be easily applied and represents a low-cost alternative for acclimating biomass to saline effluents, even in existing digesters. When the acclimated biomass was transferred from EGSB to an up-flow anaerobic sludge blanket (UASB) reactor configuration also fed with saline synthetic wastewater, more dense aggregates in the form of granules were obtained. The performances of the UASB inoculated with the acclimated biomass were comparable to another reactor seeded with saline-adapted granular sludge from a full-scale plant. Regardless of the inoculum origin, a defined core microbiome of Bacteria (Thermovirga, Bacteroidetes vadinHA17, Blvii28 wastewater-sludge group, Mesotoga, and Synergistaceae) and Archaea (Methanosaeta and Methanobacterium) was detected, highlighting the importance of these microbial groups in developing halotolerance and maintaining AD process stability.
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Affiliation(s)
- Claribel Buenaño-Vargas
- Microbial Ecology Laboratory, School of Biological and Chemical Sciences and Ryan Institute, University of Galway, University Road, Ireland
| | - M Cristina Gagliano
- Wetsus - European Centre of Excellence for Sustainable Water Technology, Oostergoweg 9, 8911MA Leeuwarden, the Netherlands
| | - Lara M Paulo
- Microbial Ecology Laboratory, School of Biological and Chemical Sciences and Ryan Institute, University of Galway, University Road, Ireland
| | - Andrew Bartle
- Microbial Ecology Laboratory, School of Biological and Chemical Sciences and Ryan Institute, University of Galway, University Road, Ireland
| | - Alison Graham
- Microbial Ecology Laboratory, School of Biological and Chemical Sciences and Ryan Institute, University of Galway, University Road, Ireland
| | - H Pieter J van Veelen
- Wetsus - European Centre of Excellence for Sustainable Water Technology, Oostergoweg 9, 8911MA Leeuwarden, the Netherlands
| | - Vincent O'Flaherty
- Microbial Ecology Laboratory, School of Biological and Chemical Sciences and Ryan Institute, University of Galway, University Road, Ireland.
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Ochoa-Hernández ME, Reynoso-Varela A, Martínez-Córdova LR, Rodelas B, Durán U, Alcántara-Hernández RJ, Serrano-Palacios D, Calderón K. Linking the shifts in the metabolically active microbiota in a UASB and hybrid anaerobic-aerobic bioreactor for swine wastewater treatment. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2023; 344:118435. [PMID: 37379625 DOI: 10.1016/j.jenvman.2023.118435] [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: 12/20/2022] [Revised: 06/05/2023] [Accepted: 06/14/2023] [Indexed: 06/30/2023]
Abstract
Due to the high concentration of pollutants, swine wastewater needs to be treated prior to disposal. The combination of anaerobic and aerobic technologies in one hybrid system allows to obtain higher removal efficiencies compared to those achieved via conventional biological treatment, and the performance of a hybrid system depends on the microbial community in the bioreactor. Here, we evaluated the community assembly of an anaerobic-aerobic hybrid reactor for swine wastewater treatment. Sequencing of partial 16S rRNA coding genes was performed using Illumina from DNA and retrotranscribed RNA templates (cDNA) extracted from samples from both sections of the hybrid system and from a UASB bioreactor fed with the same swine wastewater influent. Proteobacteria and Firmicutes were the dominant phyla and play a key role in anaerobic fermentation, followed by Methanosaeta and Methanobacterium. Several differences were found in the relative abundances of some genera between the DNA and cDNA samples, indicating an increase in the diversity of the metabolically active community, highlighting Chlorobaculum, Cladimonas, Turicibacter and Clostridium senso stricto. Nitrifying bacteria were more abundant in the hybrid bioreactor. Beta diversity analysis revealed that the microbial community structure significantly differed among the samples (p < 0.05) and between both anaerobic treatments. The main predicted metabolic pathways were the biosynthesis of amino acids and the formation of antibiotics. Also, the metabolism of C5-branched dibasic acid, Vit B5 and CoA, exhibited an important relationship with the main nitrogen-removing microorganisms. The anaerobic-aerobic hybrid bioreactor showed a higher ammonia removal rate compared to the conventional UASB system. However, further research and adjustments are needed to completely remove nitrogen from wastewater.
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Affiliation(s)
- María E Ochoa-Hernández
- Departamento de Investigaciones Científicas y Tecnológicas, Universidad de Sonora, Blvd. Luis Donaldo Colosio S/N. CP., 83000, Hermosillo, Sonora, Mexico
| | - Andrea Reynoso-Varela
- Departamento de Ciencias del Agua y Medio Ambiente, Instituto Tecnológico de Sonora, 5 de febrero 818 Sur., Ciudad Obregón, Sonora, CP.85000, Mexico
| | - Luis R Martínez-Córdova
- Departamento de Investigaciones Científicas y Tecnológicas, Universidad de Sonora, Blvd. Luis Donaldo Colosio S/N. CP., 83000, Hermosillo, Sonora, Mexico
| | - Belén Rodelas
- Department of Microbiology and Institute of Water Research, University of Granada, Spain
| | - Ulises Durán
- Universidad Autónoma Metropolitana, Biotechnology Dept., P.A. 55-535, 09340, Iztapalapa, Mexico City, Mexico
| | - Rocío J Alcántara-Hernández
- Instituto de Geología, Universidad Nacional Autónoma de México, Ciudad Universitaria, Av. Universidad 3000, Del. Coyoacán, 04510, Ciudad de México, Mexico
| | - Denisse Serrano-Palacios
- Departamento de Ciencias del Agua y Medio Ambiente, Instituto Tecnológico de Sonora, 5 de febrero 818 Sur., Ciudad Obregón, Sonora, CP.85000, Mexico.
| | - Kadiya Calderón
- Departamento de Investigaciones Científicas y Tecnológicas, Universidad de Sonora, Blvd. Luis Donaldo Colosio S/N. CP., 83000, Hermosillo, Sonora, Mexico.
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Wirth R, Bagi Z, Shetty P, Szuhaj M, Cheung TTS, Kovács KL, Maróti G. Inter-kingdom interactions and stability of methanogens revealed by machine-learning guided multi-omics analysis of industrial-scale biogas plants. THE ISME JOURNAL 2023:10.1038/s41396-023-01448-3. [PMID: 37286740 DOI: 10.1038/s41396-023-01448-3] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/08/2023] [Revised: 05/23/2023] [Accepted: 05/26/2023] [Indexed: 06/09/2023]
Abstract
Multi-omics analysis is a powerful tool for the detection and study of inter-kingdom interactions, such as those between bacterial and archaeal members of complex biogas-producing microbial communities. In the present study, the microbiomes of three industrial-scale biogas digesters, each fed with different substrates, were analysed using a machine-learning guided genome-centric metagenomics framework complemented with metatranscriptome data. This data permitted us to elucidate the relationship between abundant core methanogenic communities and their syntrophic bacterial partners. In total, we detected 297 high-quality, non-redundant metagenome-assembled genomes (nrMAGs). Moreover, the assembled 16 S rRNA gene profiles of these nrMAGs showed that the phylum Firmicutes possessed the highest copy number, while the representatives of the archaeal domain had the lowest. Further investigation of the three anaerobic microbial communities showed characteristic alterations over time but remained specific to each industrial-scale biogas plant. The relative abundance of various microorganisms as revealed by metagenome data was independent from corresponding metatranscriptome activity data. Archaea showed considerably higher activity than was expected from their abundance. We detected 51 nrMAGs that were present in all three biogas plant microbiomes with different abundances. The core microbiome correlated with the main chemical fermentation parameters, and no individual parameter emerged as a predominant shaper of community composition. Various interspecies H2/electron transfer mechanisms were assigned to hydrogenotrophic methanogens in the biogas plants that ran on agricultural biomass and wastewater. Analysis of metatranscriptome data revealed that methanogenesis pathways were the most active of all main metabolic pathways.
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Affiliation(s)
- Roland Wirth
- Institute of Plant Biology, Biological Research Centre, Szeged, Hungary
- Department of Biotechnology, University of Szeged, Szeged, Hungary
| | - Zoltán Bagi
- Department of Biotechnology, University of Szeged, Szeged, Hungary
| | - Prateek Shetty
- Institute of Plant Biology, Biological Research Centre, Szeged, Hungary
| | - Márk Szuhaj
- Department of Biotechnology, University of Szeged, Szeged, Hungary
| | | | - Kornél L Kovács
- Department of Biotechnology, University of Szeged, Szeged, Hungary
| | - Gergely Maróti
- Institute of Plant Biology, Biological Research Centre, Szeged, Hungary.
- Faculty of Water Sciences, University of Public Service, Baja, Hungary.
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Ceron-Chafla P, de Vrieze J, Rabaey K, van Lier JB, Lindeboom REF. Steering the product spectrum in high-pressure anaerobic processes: CO 2 partial pressure as a novel tool in biorefinery concepts. BIOTECHNOLOGY FOR BIOFUELS AND BIOPRODUCTS 2023; 16:27. [PMID: 36803622 PMCID: PMC9938588 DOI: 10.1186/s13068-023-02262-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/22/2022] [Accepted: 01/05/2023] [Indexed: 02/19/2023]
Abstract
BACKGROUND Elevated CO2 partial pressure (pCO2) has been proposed as a potential steering parameter for selective carboxylate production in mixed culture fermentation. It is anticipated that intermediate product spectrum and production rates, as well as changes in the microbial community, are (in)directly influenced by elevated pCO2. However, it remains unclear how pCO2 interacts with other operational conditions, namely substrate specificity, substrate-to-biomass (S/X) ratio and the presence of an additional electron donor, and what effect pCO2 has on the exact composition of fermentation products. Here, we investigated possible steering effects of elevated pCO2 combined with (1) mixed substrate (glycerol/glucose) provision; (2) subsequent increments in substrate concentration to increase the S/X ratio; and (3) formate as an additional electron donor. RESULTS Metabolite predominance, e.g., propionate vs. butyrate/acetate, and cell density, depended on interaction effects between pCO2-S/X ratio and pCO2-formate. Individual substrate consumption rates were negatively impacted by the interaction effect between pCO2-S/X ratio and were not re-established after lowering the S/X ratio and adding formate. The product spectrum was influenced by the microbial community composition, which in turn, was modified by substrate type and the interaction effect between pCO2-formate. High propionate and butyrate levels strongly correlated with Negativicutes and Clostridia predominance, respectively. After subsequent pressurized fermentation phases, the interaction effect between pCO2-formate enabled a shift from propionate towards succinate production when mixed substrate was provided. CONCLUSIONS Overall, interaction effects between elevated pCO2, substrate specificity, high S/X ratio and availability of reducing equivalents from formate, rather than an isolated pCO2 effect, modified the proportionality of propionate, butyrate and acetate in pressurized mixed substrate fermentations at the expense of reduced consumption rates and increased lag-phases. The interaction effect between elevated pCO2 and formate was beneficial for succinate production and biomass growth with a glycerol/glucose mixture as the substrate. The positive effect may be attributed to the availability of extra reducing equivalents, likely enhanced carbon fixating activity and hindered propionate conversion due to increased concentration of undissociated carboxylic acids.
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Affiliation(s)
- Pamela Ceron-Chafla
- Sanitary Engineering Section, Department of Water Management, Delft University of Technology, Stevinweg 1, 2628 CN, Delft, The Netherlands.
| | - Jo de Vrieze
- grid.5342.00000 0001 2069 7798Center for Microbial Ecology and Technology (CMET), Ghent University, Coupure Links 653, 9000 Ghent, Belgium
| | - Korneel Rabaey
- grid.5342.00000 0001 2069 7798Center for Microbial Ecology and Technology (CMET), Ghent University, Coupure Links 653, 9000 Ghent, Belgium ,grid.510907.aCenter for Advanced Process Technology for Urban Resource Recovery (CAPTURE), Coupure Links 653, 9000 Ghent, Belgium
| | - Jules B. van Lier
- grid.5292.c0000 0001 2097 4740Sanitary Engineering Section, Department of Water Management, Delft University of Technology, Stevinweg 1, 2628 CN Delft, The Netherlands
| | - Ralph E. F. Lindeboom
- grid.5292.c0000 0001 2097 4740Sanitary Engineering Section, Department of Water Management, Delft University of Technology, Stevinweg 1, 2628 CN Delft, The Netherlands
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7
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DeBofsky A, Xie Y, Challis JK, Ankley PJ, Brinkmann M, Jones PD, Giesy JP. 16S rRNA metabarcoding unearths responses of rare gut microbiome of fathead minnows exposed to benzo[a]pyrene. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 807:151060. [PMID: 34710422 DOI: 10.1016/j.scitotenv.2021.151060] [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: 06/26/2021] [Revised: 09/23/2021] [Accepted: 10/14/2021] [Indexed: 06/13/2023]
Abstract
Activities of gut microbiomes are often overlooked in assessments of ecotoxicological effects of environmental contaminants. Effects of the polycyclic aromatic hydrocarbon, benzo[a]pyrene (BaP) on active gut microbiomes of juvenile fathead minnows (Pimephales promelas) were investigated. Fish were exposed for two weeks, to concentrations of 0, 1, 10, 100, or 1000 μg BaP g-1 in the diet. The active gut microbiome was characterized using 16S rRNA metabarcoding to determine its response to dietary exposure of BaP. BaP reduced alpha-diversity at the greatest exposure concentrations. Additionally, exposure to BaP altered community composition of active microbiome and resulted in differential proportion of taxa associated with hydrocarbon degradation and fish health. Neighborhood selection networks of active microbiomes were not reduced with greater concentrations of BaP, which suggests ecological resistance and/or resilience of gut microbiota. The active gut microbiome had a similar overall biodiversity as that of the genomic gut microbiota, but had a distinct composition from that of the 16S rDNA profile. Responses of alpha- and beta-diversities of the active microbiome to BaP exposure were consistent with that of genomic microbiomes. Normalized activity of microbiome via the ratio of rRNA to rDNA abundance revealed rare taxa that became active or dormant due to exposure to BaP. These differences highlight the need to assess both 16S rDNA and rRNA metabarcoding to fully derive bacterial compositional changes resulting from exposure to contaminants.
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Affiliation(s)
- Abigail DeBofsky
- Toxicology Centre, University of Saskatchewan, Saskatoon, Saskatchewan, Canada
| | - Yuwei Xie
- Toxicology Centre, University of Saskatchewan, Saskatoon, Saskatchewan, Canada.
| | - Jonathan K Challis
- Toxicology Centre, University of Saskatchewan, Saskatoon, Saskatchewan, Canada
| | - Phillip J Ankley
- Toxicology Centre, University of Saskatchewan, Saskatoon, Saskatchewan, Canada
| | - Markus Brinkmann
- Toxicology Centre, University of Saskatchewan, Saskatoon, Saskatchewan, Canada; School of Environment and Sustainability, University of Saskatchewan, Saskatoon, Saskatchewan, Canada
| | - Paul D Jones
- Toxicology Centre, University of Saskatchewan, Saskatoon, Saskatchewan, Canada; School of Environment and Sustainability, University of Saskatchewan, Saskatoon, Saskatchewan, Canada
| | - John P Giesy
- Toxicology Centre, University of Saskatchewan, Saskatoon, Saskatchewan, Canada; Department of Veterinary Biomedical Sciences and Toxicology Centre, University of Saskatchewan, Saskatoon, Saskatchewan, Canada; Department of Environmental Science, Baylor University, Waco, TX, USA
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8
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Owusu-Agyeman I, Plaza E, Cetecioglu Z. A pilot-scale study of granule-based anaerobic reactors for biogas recovery from municipal wastewater under sub-mesophilic conditions. BIORESOURCE TECHNOLOGY 2021; 337:125431. [PMID: 34198242 DOI: 10.1016/j.biortech.2021.125431] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/29/2021] [Revised: 06/11/2021] [Accepted: 06/16/2021] [Indexed: 06/13/2023]
Abstract
The influence of hydraulic retention time (HRT of 3-5 h) and temperature (20-25 °C) on performance and microbial dynamics of two pilot-scale upflow anaerobic sludge blanket (UASB) reactors with different granule size distribution (UASB1 = 3-4 mm and UASB2 = 1-2 mm) were investigated for 217 days. Increasing the HRT to 5 h even at a lower temperature of 20 °C enhanced COD removal and biogas production with average of 59 ± 16% (up to 85%) and 73 ± 9 L/(m3·d) (up to 102 L/(m3·d)) for UASB1; 63 ± 16% (up to 85%) and 75 ± 9 L/(m3·d) (up to 90 L/(m3·d)) for UASB2, respectively. This is explained by sufficient contact time between microorganisms and substrate. Acetoclastic methanogenic activity was higher in UASB1 because Methanosaetaceae (produces methane from acetate) dominated (64 ± 4%). However, Methanoregulaceae (29 ± 3%) and Methanomicrobiales_unassigned (20 ± 6%) which produce methane from H2/CO2 and formate were significant in UASB2. The extent of change in the microbial dynamics with HRT and temperature was more obvious in the smaller granule reactor.
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Affiliation(s)
- Isaac Owusu-Agyeman
- Department of Chemical Engineering, KTH Royal Institute of Technology, SE-100 44, Stockholm, Sweden.
| | - Elzbieta Plaza
- Department of Sustainable Development, Environmental Science and Engineering, KTH Royal Institute of Technology, SE-100 44, Stockholm, Sweden
| | - Zeynep Cetecioglu
- Department of Chemical Engineering, KTH Royal Institute of Technology, SE-100 44, Stockholm, Sweden
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9
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Christou ML, Vasileiadis S, Karpouzas DG, Angelidaki I, Kotsopoulos TA. Effects of organic loading rate and hydraulic retention time on bioaugmentation performance to tackle ammonia inhibition in anaerobic digestion. BIORESOURCE TECHNOLOGY 2021; 334:125246. [PMID: 33971537 DOI: 10.1016/j.biortech.2021.125246] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/05/2021] [Revised: 04/24/2021] [Accepted: 04/27/2021] [Indexed: 06/12/2023]
Abstract
Three continuously stirred-tank reactors fed with manure operating under high ammonia levels (5.0 g NH3-N L-1) and with increased organic loading rate (OLR), (2.09 R1, 3.02 R2 and 4.0 R3 g VS L-1 d-1), achieved through glucose amendment in R2 and R3, were inoculated with an ammonia-acclimatized microbial culture. Successful bioaugmentation was endured only in R2 and R3, both reactors characterized by high OLR, resulting in 19.6 and 24.5% increase in methane production, respectively. The high OLRs in these reactors favored the co-occurrence of the hydrogenotrophic (Methanobacteriaceae), methylotrophic (Methanomethylophilaceae) and aceticlastic methanogenic pathways. The latter was supported by the successful establishment of ammonium-tolerant Methanosarcina, prevailing in the inoculum. Oppositely in R1, the low OLR prevented the establishment of Methanosarcina, leading to an exclusive hydrogenotrophic methanogenesis and reduced methane production. HRT shortening resulted in limited effect on biomethane performance, indicating a well establishment of the introduced bioaugmentation culture in the reactors.
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Affiliation(s)
- M L Christou
- Department of Hydraulics, Soil Science and Agricultural Engineering, School of Agriculture, Aristotle University of Thessaloniki, Thessaloniki GR-54124, Greece
| | - S Vasileiadis
- Department of Biochemistry and Biotechnology, University of Thessaly, Larissa GR-41500, Greece
| | - D G Karpouzas
- Department of Biochemistry and Biotechnology, University of Thessaly, Larissa GR-41500, Greece
| | - I Angelidaki
- Department of Chemical Engineering, Technical University of Denmark, Kgs. Lyngby DK-2800, Denmark
| | - T A Kotsopoulos
- Department of Hydraulics, Soil Science and Agricultural Engineering, School of Agriculture, Aristotle University of Thessaloniki, Thessaloniki GR-54124, Greece.
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10
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Parker ES, Newton ILG, Moczek AP. (My Microbiome) Would Walk 10,000 miles: Maintenance and Turnover of Microbial Communities in Introduced Dung Beetles. MICROBIAL ECOLOGY 2020; 80:435-446. [PMID: 32314003 DOI: 10.1007/s00248-020-01514-9] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/07/2020] [Accepted: 04/08/2020] [Indexed: 06/11/2023]
Abstract
Host-associated microbes facilitate diverse biotic and abiotic interactions between hosts and their environments. Experimental alterations of host-associated microbial communities frequently decrease host fitness, yet much less is known about if and how host-microbiome interactions are altered by natural perturbations, such as introduction events. Here, we begin to assess this question in Onthophagus dung beetles, a species-rich and geographically widely distributed genus whose members rely on vertically transmitted microbiota to support normal development. Specifically, we investigated to what extent microbiome community membership shifts during host introduction events and the relative significance of ancestral associations and novel environmental conditions in the structuring of microbial communities of introduced host species. Our results demonstrate that both evolutionary history and local environmental forces structure the microbial communities of these animals, but that their relative importance is shaped by the specific circumstances that characterize individual introduction events. Furthermore, we identify microbial taxa such as Dysgonomonas that may constitute members of the core Onthophagus microbiome regardless of host population or species, but also Wolbachia which associates with Onthophagus beetles in a species or even population-specific manner. We discuss the implications of our results for our understanding of the evolutionary ecology of symbiosis in dung beetles and beyond.
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Affiliation(s)
- Erik S Parker
- Department of Biology, Indiana University, 102 East Myers Hall, 915 East 3rd street, Bloomington, IN, 47405, USA.
| | - Irene L G Newton
- Department of Biology, Indiana University, 102 East Myers Hall, 915 East 3rd street, Bloomington, IN, 47405, USA
| | - Armin P Moczek
- Department of Biology, Indiana University, 102 East Myers Hall, 915 East 3rd street, Bloomington, IN, 47405, USA
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11
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Wu ZL, Lin Z, Sun ZY, Gou M, Xia ZY, Tang YQ. A comparative study of mesophilic and thermophilic anaerobic digestion of municipal sludge with high-solids content: Reactor performance and microbial community. BIORESOURCE TECHNOLOGY 2020; 302:122851. [PMID: 32007850 DOI: 10.1016/j.biortech.2020.122851] [Citation(s) in RCA: 24] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/22/2019] [Revised: 01/14/2020] [Accepted: 01/17/2020] [Indexed: 06/10/2023]
Abstract
This study involved a comparison between mesophilic (MAD) and thermophilic anaerobic digestion (TAD) of municipal sludge with high (10%) solids content; the reactor performance and the response of total and active microbial communities to changes in sludge properties were monitored. Both TAD and MAD were stably maintained. TAD performed better than MAD in biogas production and volatile total solids reduction upon feeding sludge 1. TAD was slightly inhibited by ammonia, whereas the performance of MAD was improved when sludge 2 was used as the feedstock. Alpha- and beta-diversity analyses revealed significant differences in the microbial community based on DNA and RNA datasets, indicating that not all microbes function in AD. The active microbial community diversity and composition in MAD and TAD were also driven by sludge properties. Moreover, MAD showed significantly higher richness and diversity of the active microbial community compared with TAD, regardless of changes in sludge properties.
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Affiliation(s)
- Zong-Lin Wu
- College of Architecture and Environment, Sichuan University, No. 24 South Section 1 First Ring Road, Chengdu 610065, Sichuan, China
| | - Zhi Lin
- College of Architecture and Environment, Sichuan University, No. 24 South Section 1 First Ring Road, Chengdu 610065, Sichuan, China
| | - Zhao-Yong Sun
- College of Architecture and Environment, Sichuan University, No. 24 South Section 1 First Ring Road, Chengdu 610065, Sichuan, China.
| | - Min Gou
- College of Architecture and Environment, Sichuan University, No. 24 South Section 1 First Ring Road, Chengdu 610065, Sichuan, China
| | - Zi-Yuan Xia
- College of Architecture and Environment, Sichuan University, No. 24 South Section 1 First Ring Road, Chengdu 610065, Sichuan, China
| | - Yue-Qin Tang
- College of Architecture and Environment, Sichuan University, No. 24 South Section 1 First Ring Road, Chengdu 610065, Sichuan, China
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12
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Guo B, Zhang Y, Zhang L, Zhou Y, Liu Y. RNA-based spatial community analysis revealed intra-reactor variation and expanded collection of direct interspecies electron transfer microorganisms in anaerobic digestion. BIORESOURCE TECHNOLOGY 2020; 298:122534. [PMID: 31835200 DOI: 10.1016/j.biortech.2019.122534] [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: 10/10/2019] [Revised: 11/27/2019] [Accepted: 11/28/2019] [Indexed: 06/10/2023]
Abstract
Granular activated carbon (GAC) has been shown to mediate direct interspecies electron transfer (DIET) in anaerobic digestion. Adding GAC to up-flow anaerobic sludge bed reactor increased the total biomass slightly from 20.0 to 26.6 gVSS/reactor, and maximum organic removal capacity remarkably from 285 to 1660 mgCOD/L/d. Since GAC occupied 7% of reactor volume (denser than suspended sludge, settled to the reactor bottom), we used a spatial sampling strategy (sludge bed top/mid/bottom layers, and tightly attached GAC-biofilm) and DNA- and RNA-based community analyses. RNA-based analysis demonstrated significant community differences between the non-GAC and GAC-amended reactors (p < 0.05) based on ANOSIM statistical analysis. In comparison, DNA-based analysis showed little community difference between these reactors (p > 0.05). RNA-based analysis revealed active enrichments in GAC-biofilm, including bacteria Geobacter, Syntrophus, Desulfovibrio and Blvii28, and archaea Methanosaeta and Methanospirillum. These are potential electro-active syntrophic microorganisms related with DIET, which expand the previously defined list of DIET microorganisms.
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Affiliation(s)
- Bing Guo
- Department of Civil and Environmental Engineering, University of Alberta, T6G 1H9 Edmonton, Canada
| | - Yingdi Zhang
- Department of Civil and Environmental Engineering, University of Alberta, T6G 1H9 Edmonton, Canada
| | - Lei Zhang
- Department of Civil and Environmental Engineering, University of Alberta, T6G 1H9 Edmonton, Canada
| | - Yun Zhou
- Department of Civil and Environmental Engineering, University of Alberta, T6G 1H9 Edmonton, Canada
| | - Yang Liu
- Department of Civil and Environmental Engineering, University of Alberta, T6G 1H9 Edmonton, Canada.
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13
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Franchi O, Cabrol L, Chamy R, Rosenkranz F. Correlations between microbial population dynamics, bamA gene abundance and performance of anaerobic sequencing batch reactor (ASBR) treating increasing concentrations of phenol. J Biotechnol 2020; 310:40-48. [PMID: 32001255 DOI: 10.1016/j.jbiotec.2020.01.010] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2019] [Revised: 01/14/2020] [Accepted: 01/18/2020] [Indexed: 12/19/2022]
Abstract
The relevant microorganims driving efficiency changes in anaerobic digestion of phenol remains uncertain. In this study correlations were established between microbial population and the process performance in an anaerobic sequencing batch reactor (ASBR) treating increasing concentrations of phenol (from 120 to 1200 mg L-1). Sludge samples were taken at different operational stages and microbial community dynamics was analyzed by 16S rRNA sequencing. In addition, bamA gene was quantified in order to evaluate the dynamics of anaerobic aromatic degraders. The microbial community was dominated by Anaerolineae, Bacteroidia, Clostridia, and Methanobacteria classes. Correlation analysis between bamA gene copy number and phenol concentration were highly significant, suggesting that the increase of aromatic degraders targeted by bamA assay was due to an increase in the amount of phenol degraded over time. The incremental phenol concentration affected hydrogenotrophic archaea triggering a linear decrease of Methanobacterium and the growth of Methanobrevibacter. The best performance in the reactor was at 800 mg L-1 of phenol. At this stage, the highest relative abundances of Syntrophorhabdus, Chloroflexus, Smithella, Methanolinea and Methanosaeta were observed and correlated positively with initial degradation rate, suggesting that these microorganisms are relevant players to maintain a good performance in the ASBR.
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Affiliation(s)
- Oscar Franchi
- Escuela de Ingeniería Bioquímica, Pontificia Universidad Católica de Valparaíso, Avenida Brasil 2085, Valparaíso, Chile.
| | - Léa Cabrol
- Aix Marseille Univ, Univ Toulon, CNRS, IRD - Mediterranean Institute of Oceanography (MIO - UM 110), Marseille, France
| | - Rolando Chamy
- Escuela de Ingeniería Bioquímica, Pontificia Universidad Católica de Valparaíso, Avenida Brasil 2085, Valparaíso, Chile; Núcleo Biotecnología Curauma, Pontificia Universidad Católica de Valparaíso, Avenida Universidad 330, Valparaíso, Chile
| | - Francisca Rosenkranz
- Núcleo Biotecnología Curauma, Pontificia Universidad Católica de Valparaíso, Avenida Universidad 330, Valparaíso, Chile
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14
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Harkes P, van Steenbrugge JJM, van den Elsen SJJ, Suleiman AKA, de Haan JJ, Holterman MHM, Helder J. Shifts in the Active Rhizobiome Paralleling Low Meloidogyne chitwoodi Densities in Fields Under Prolonged Organic Soil Management. FRONTIERS IN PLANT SCIENCE 2020; 10:1697. [PMID: 31998352 PMCID: PMC6965313 DOI: 10.3389/fpls.2019.01697] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/23/2019] [Accepted: 12/02/2019] [Indexed: 06/10/2023]
Abstract
Plants manipulate their rhizosphere community in a species and even a plant life stage-dependent manner. In essence plants select, promote and (de)activate directly the local bacterial and fungal community, and indirectly representatives of the next trophic level, protists and nematodes. By doing so, plants enlarge the pool of bioavailable nutrients and maximize local disease suppressiveness within the boundaries set by the nature of the local microbial community. MiSeq sequencing of specific variable regions of the 16S or 18S ribosomal DNA (rDNA) is widely used to map microbial shifts. As current RNA extraction procedures are time-consuming and expensive, the rRNA-based characterization of the active microbial community is taken along less frequently. Recently, we developed a relatively fast and affordable protocol for the simultaneous extraction of rDNA and rRNA from soil. Here, we investigated the long-term impact of three type of soil management, two conventional and an organic regime, on soil biota in fields naturally infested with the Columbian root-knot nematode Meloidogyne chitwoodi with pea (Pisum sativum) as the main crop. For all soil samples, large differences were observed between resident (rDNA) and active (rRNA) microbial communities. Among the four organismal group under investigation, the bacterial community was most affected by the main crop, and unweighted and weighted UniFrac analyses (explaining respectively 16.4% and 51.3% of the observed variation) pointed at a quantitative rather than a qualitative shift. LEfSe analyses were employed for each of the four organismal groups to taxonomically pinpoint the effects of soil management. Concentrating on the bacterial community in the pea rhizosphere, organic soil management resulted in a remarkable activation of members of the Burkholderiaceae, Enterobacteriaceae, and Pseudomonadaceae. Prolonged organic soil management was also accompanied by significantly higher densities of bacterivorous nematodes, whereas levels of M. chitwoodi had dropped drastically. Though present and active in the fields under investigation Orbiliaceae, a family harboring numerous nematophagous fungi, was not associated with the M. chitwoodi decline. A closer look revealed that a local accumulation and activation of Pseudomonas, a genus that includes a number of nematode-suppressive species, paralleled the lower M. chitwoodi densities. This study underlines the relevance of taking along both resident and active fractions of multiple organismal groups while mapping the impact of e.g. crops and soil management regimes.
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Affiliation(s)
- Paula Harkes
- Laboratory of Nematology, Department of Plant Sciences, Wageningen University & Research, Wageningen, Netherlands
| | | | | | - Afnan Khalil Ahmad Suleiman
- Department of Microbial Ecology, NIOO-KNAW, Wageningen, Netherlands
- Department of Microbiological Water Quality and Health, KWR Watercycle Research Institute, PE Nieuwegein, Netherlands
| | - Johannes Jan de Haan
- Open Teelten, Department of Wageningen Plant Research, Wageningen University & Research, Lelystad, Netherlands
| | | | - Johannes Helder
- Laboratory of Nematology, Department of Plant Sciences, Wageningen University & Research, Wageningen, Netherlands
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15
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Abstract
The microbiome residing in anaerobic digesters drives the anaerobic digestion (AD) process to convert various feedstocks to biogas as a renewable source of energy. This microbiome has been investigated in numerous studies in the last century. The early studies used cultivation-based methods and analysis to identify the four guilds (or functional groups) of microorganisms. Molecular biology techniques overcame the limitations of cultivation-based methods and allowed the identification of unculturable microorganisms, revealing the high diversity of microorganisms involved in AD. In the past decade, omics technologies, including metataxonomics, metagenomics, metatranscriptomics, metaproteomics, and metametabolomics, have been or start to be used in comprehensive analysis and studies of biogas-producing microbiomes. In this chapter, we reviewed the utilities and limitations of these analysis methods, techniques, and technologies when they were used in studies of biogas-producing microbiomes, as well as the new information on diversity, composition, metabolism, and syntrophic interactions of biogas-producing microbiomes. We also discussed the current knowledge gaps and the research needed to further improve AD efficiency and stability.
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16
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Tian H, Yan M, Treu L, Angelidaki I, Fotidis IA. Hydrogenotrophic methanogens are the key for a successful bioaugmentation to alleviate ammonia inhibition in thermophilic anaerobic digesters. BIORESOURCE TECHNOLOGY 2019; 293:122070. [PMID: 31491648 DOI: 10.1016/j.biortech.2019.122070] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/25/2019] [Revised: 08/20/2019] [Accepted: 08/24/2019] [Indexed: 05/20/2023]
Abstract
Bioaugmentation to alleviate ammonia inhibition under thermophilic anaerobic digestion has never been reported, as well as the working mechanism that allows a fast and successful bioaugmentation. Thus two bioaugmentation inocula (an enriched culture, and a mixed culture composed 50/50 by Methanoculleus thermophilus and the enriched culture) on the recovery of ammonia-inhibited thermophilic continuous reactors was assessed. The results showed that bioaugmentation improved methane yield by 11-13% and decreased the volatile fatty acids (VFA) by 45-52% compared to the control reactor (abiotic augmentation). Moreover, the importance of hydrogenotrophic methanogens to a fast and successful bioaugmentation was recognized. Specifically, the instant hydrogen partial pressure reduction by the bioaugmented hydrogenotroph created thermodynamically favourable conditions for the acetate oxidation process and consequently, the catabolism of other VFA. High-throughput sequencing results strengthened this explanation by showing that the bioaugmented M. thermophilus stimulated the growth of syntrophic acetate oxidising bacterium Thermacetogenium phaeum, immediately after bioaugmentation.
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Affiliation(s)
- Hailin Tian
- Department of Environmental Engineering, Technical University of Denmark, Bygningstorvet Bygning 115, 2800 Kgs. Lyngby, Denmark; Environmental Research Institute, National University of Singapore, 1 Create Way, Create Tower, Singapore 138602, Singapore
| | - Miao Yan
- Department of Environmental Engineering, Technical University of Denmark, Bygningstorvet Bygning 115, 2800 Kgs. Lyngby, Denmark
| | - Laura Treu
- Department of Environmental Engineering, Technical University of Denmark, Bygningstorvet Bygning 115, 2800 Kgs. Lyngby, Denmark; Department of Biology, University of Padua, 35131 Padua, Italy
| | - Irini Angelidaki
- Department of Environmental Engineering, Technical University of Denmark, Bygningstorvet Bygning 115, 2800 Kgs. Lyngby, Denmark
| | - Ioannis A Fotidis
- Department of Environmental Engineering, Technical University of Denmark, Bygningstorvet Bygning 115, 2800 Kgs. Lyngby, Denmark.
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17
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Salgar-Chaparro SJ, Machuca LL. Complementary DNA/RNA-Based Profiling: Characterization of Corrosive Microbial Communities and Their Functional Profiles in an Oil Production Facility. Front Microbiol 2019; 10:2587. [PMID: 31787960 PMCID: PMC6853844 DOI: 10.3389/fmicb.2019.02587] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2019] [Accepted: 10/25/2019] [Indexed: 12/21/2022] Open
Abstract
DNA and RNA-based sequencing of the 16S rRNA gene and transcripts were used to assess the phylogenetic diversity of microbial communities at assets experiencing corrosion in an oil production facility. The complementary methodological approach, coupled with extensive bioinformatics analysis, allowed to visualize differences between the total and potentially active communities present in several locations of the production facility. According to the results, taxa indicative for thermophiles and oil-degrading microorganisms decreased their relative abundances in the active communities, whereas sulfate reducing bacteria and methanogens had the opposite pattern. The differences in the diversity profile between total and active communities had an effect on the microbial functional capability predicted from the 16S rRNA sequences. Primarily, genes involved in methane metabolism were enriched in the RNA-based sequencing approach. Comparative analysis of microbial communities in the produced water, injection water and deposits in the pipelines showed that deposits host more individual species than other sample sources in the facility. Similarities in the number of cells and microbial profiles of active communities in biocide treated and untreated sampling locations suggested that the treatment was ineffective at controlling the growth of microbial populations with a known corrosive metabolism. Differences in the results between DNA and RNA-based profiling demonstrated that DNA results alone can lead to the underestimation of active members in the community, highlighting the importance of using a complementary approach to obtain a broad general overview not only of total and active members but also in the predicted functionality.
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Affiliation(s)
- Silvia J Salgar-Chaparro
- Curtin Corrosion Centre, WA School of Mines: Minerals, Energy and Chemical Engineering, Curtin University, Perth, WA, Australia
| | - Laura L Machuca
- Curtin Corrosion Centre, WA School of Mines: Minerals, Energy and Chemical Engineering, Curtin University, Perth, WA, Australia
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18
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Langer SG, Gabris C, Einfalt D, Wemheuer B, Kazda M, Bengelsdorf FR. Different response of bacteria, archaea and fungi to process parameters in nine full-scale anaerobic digesters. Microb Biotechnol 2019; 12:1210-1225. [PMID: 30995692 PMCID: PMC6801161 DOI: 10.1111/1751-7915.13409] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2017] [Revised: 02/09/2019] [Accepted: 03/29/2019] [Indexed: 01/20/2023] Open
Abstract
Biogas production is a biotechnological process realized by complex bacterial, archaeal and likely fungal communities. Their composition was assessed in nine full-scale biogas plants with distinctly differing feedstock input and process parameters. This study investigated the actually active microbial community members by using a comprehensive sequencing approach based on ribosomal 16S and 28S rRNA fragments. The prevailing taxonomical units of each respective community were subsequently linked to process parameters. Ribosomal rRNA of bacteria, archaea and fungi, respectively, showed different compositions with respect to process parameters and supplied feedstocks: (i) bacterial communities were affected by the key factors temperature and ammonium concentration; (ii) composition of archaea was mainly related to process temperature; and (iii) relative abundance of fungi was linked to feedstocks supplied to the digesters. Anaerobic digesters with a high methane yield showed remarkably similar bacterial communities regarding identified taxonomic families. Although archaeal communities differed strongly on genus level from each other, the respective digesters still showed high methane yields. Functional redundancy of the archaeal communities may explain this effect. 28S rRNA sequences of fungi in all nine full-scale anaerobic digesters were primarily classified as facultative anaerobic Ascomycota and Basidiomycota. Since the presence of ribosomal 28S rRNA indicates that fungi may be active in the biogas digesters, further research should be carried out to examine to which extent they are important players in anaerobic digestion processes.
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MESH Headings
- Anaerobiosis
- Archaea/classification
- Archaea/genetics
- Archaea/growth & development
- Bacteria, Anaerobic/classification
- Bacteria, Anaerobic/genetics
- Bacteria, Anaerobic/growth & development
- Biofuels
- Bioreactors/microbiology
- Cluster Analysis
- DNA, Archaeal/chemistry
- DNA, Archaeal/genetics
- DNA, Bacterial/chemistry
- DNA, Bacterial/genetics
- DNA, Fungal/chemistry
- DNA, Fungal/genetics
- DNA, Ribosomal/chemistry
- DNA, Ribosomal/genetics
- Fungi/classification
- Fungi/genetics
- Fungi/growth & development
- Manure/microbiology
- Metagenomics
- Microbiota
- Phylogeny
- RNA, Ribosomal, 16S/genetics
- RNA, Ribosomal, 28S/genetics
- Sequence Analysis, DNA
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Affiliation(s)
| | - Christina Gabris
- Institute of Microbiology and BiotechnologyUlm UniversityUlmGermany
- Present address:
Bühlmann Laboratories AGSchönenbuchSwitzerland
| | - Daniel Einfalt
- Institute of Systematic Botany and EcologyUlm UniversityUlmGermany
- Present address:
Institute of Food Science and BiotechnologyUniversity of HohenheimStuttgartGermany
| | - Bernd Wemheuer
- Genomic and Applied Microbiology & Göttingen Genomics LaboratoryGeorg‐August University GöttingenGöttingenGermany
| | - Marian Kazda
- Institute of Systematic Botany and EcologyUlm UniversityUlmGermany
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19
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Harkes P, Suleiman AKA, van den Elsen SJJ, de Haan JJ, Holterman M, Kuramae EE, Helder J. Conventional and organic soil management as divergent drivers of resident and active fractions of major soil food web constituents. Sci Rep 2019; 9:13521. [PMID: 31534146 PMCID: PMC6751164 DOI: 10.1038/s41598-019-49854-y] [Citation(s) in RCA: 30] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2019] [Accepted: 08/27/2019] [Indexed: 11/09/2022] Open
Abstract
Conventional agricultural production systems, typified by large inputs of mineral fertilizers and pesticides, reduce soil biodiversity and may negatively affect ecosystem services such as carbon fixation, nutrient cycling and disease suppressiveness. Organic soil management is thought to contribute to a more diverse and stable soil food web, but data detailing this effect are sparse and fragmented. We set out to map both the resident (rDNA) and the active (rRNA) fractions of bacterial, fungal, protozoan and metazoan communities under various soil management regimes in two distinct soil types with barley as the main crop. Contrasts between resident and active communities explained 22%, 14%, 21% and 25% of the variance within the bacterial, fungal, protozoan, and metazoan communities. As the active fractions of organismal groups define the actual ecological functioning of soils, our findings underline the relevance of characterizing both resident and active pools. All four major organismal groups were affected by soil management (p < 0.01), and most taxa showed both an increased presence and an enlarged activity under the organic regime. Hence, a prolonged organic soil management not only impacts the primary decomposers, bacteria and fungi, but also major representatives of the next trophic level, protists and metazoa.
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Affiliation(s)
- Paula Harkes
- Laboratory of Nematology, Dept. Plant Sciences, Wageningen University, Droevendaalsesteeg 1, 6708 PB, Wageningen, The Netherlands
| | - Afnan K A Suleiman
- Department Microbial Ecology, Droevendaalsesteeg 10, 6708 PB, Wageningen, The Netherlands
- KWR Watercycle Research Institute, Groningenhaven 7, 3433, PE, Nieuwegein, The Netherlands
| | - Sven J J van den Elsen
- Laboratory of Nematology, Dept. Plant Sciences, Wageningen University, Droevendaalsesteeg 1, 6708 PB, Wageningen, The Netherlands
| | - Johannes J de Haan
- Wageningen University & Research Open Teelten, Edelhertweg 10, Lelystad, The Netherlands
| | - Martijn Holterman
- Laboratory of Nematology, Dept. Plant Sciences, Wageningen University, Droevendaalsesteeg 1, 6708 PB, Wageningen, The Netherlands
| | - Eiko E Kuramae
- Department Microbial Ecology, Droevendaalsesteeg 10, 6708 PB, Wageningen, The Netherlands
| | - Johannes Helder
- Laboratory of Nematology, Dept. Plant Sciences, Wageningen University, Droevendaalsesteeg 1, 6708 PB, Wageningen, The Netherlands.
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20
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Yang QS, Dong JD, Ahmad M, Ling J, Zhou WG, Tan YH, Zhang YZ, Shen DD, Zhang YY. Analysis of nifH DNA and RNA reveals a disproportionate contribution to nitrogenase activities by rare plankton-associated diazotrophs. BMC Microbiol 2019; 19:188. [PMID: 31416417 PMCID: PMC6694519 DOI: 10.1186/s12866-019-1565-9] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2019] [Accepted: 08/05/2019] [Indexed: 11/21/2022] Open
Abstract
BACKGROUND Holobionts comprising nitrogen-fixing diazotrophs and phytoplankton or zooplankton are ubiquitous in the pelagic sea. However, neither the community structure of plankton-associated diazotrophs (PADs) nor their nitrogenase transcriptional activity are well-understood. In this study, we used nifH gene Illumina sequencing and quantitative PCR to characterize the community composition and nifH expression profile of PADs with > 100 μm size fraction in the euphotic zone of the northern South China Sea. RESULTS The results of DNA- and RNA-derived nifH gene revealed a higher alpha-diversity in the active than in the total community. Moreover, the compositional resemblance among different sites was less for active than for total communities of PADs. We characterized the 20 most abundant OTUs by ranking the sum of sequence reads across 9 sampling stations for individual OTUs in both nifH DNA and RNA libraries, and then assessed their phylogenetic relatedness. Eight of the 20 abundant OTUs were phylogenetically affiliated with Trichodesmium and occurred in approximately equal proportion in both the DNA and RNA libraries. The analysis of nifH gene expression level showed uneven attribute of the abundance and nitrogenase activities by the remaining 12 OTUs. Taxa belonging to cluster III and Betaproteobacteria were present at moderate abundance but exhibited negligible nitrogenase transcription activity. Whereas, the abundances of Richelia, Deltaproteobacteria and Gammaproteobacteria were low but the contribution of these groups to nitrogenase transcription was disproportionately high. CONCLUSIONS The substantial variation in community structure among active dizatrophic fractions compared to the total communities suggests that the former are better indicators of biological response to environmental changes. Altogether, our study highlights the importance of rare PADs groups in nitrogen fixation in plankton holobionts, evidenced by their high level of nitrogenase transcription.
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Affiliation(s)
- Qing-Song Yang
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, 510301, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Jun-De Dong
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, 510301, China
- Tropical Marine Biological Research Station in Hainan, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Sanya, 572000, China
| | - Manzoor Ahmad
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, 510301, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Juan Ling
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, 510301, China
| | - Wei-Guo Zhou
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, 510301, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Ye-Hui Tan
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, 510301, China
| | - Yuan-Zhou Zhang
- State Oceanic Administration Sansha Marine Environmental Monitoring Center Station, Haikou, 570311, China
| | - Dan-Dan Shen
- Section of Biological Oceanography, Leibniz Institute for Baltic Sea Research, 18119, Warnemünde, Germany.
| | - Yan-Ying Zhang
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, 510301, China.
- Tropical Marine Biological Research Station in Hainan, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Sanya, 572000, China.
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21
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Impact of the inoculum composition on the structure of the total and active community and its performance in identically operated anaerobic reactors. Appl Microbiol Biotechnol 2019; 103:9191-9203. [DOI: 10.1007/s00253-019-10041-8] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2018] [Revised: 05/16/2019] [Accepted: 07/23/2019] [Indexed: 10/26/2022]
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22
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Castrillon L, Londoño YA, Pino NJ, Peñuela GA. Comparison of microbial and physicochemical behavior of expanded granular sludge bed system during methylparaben and triclosan removal. WATER SCIENCE AND TECHNOLOGY : A JOURNAL OF THE INTERNATIONAL ASSOCIATION ON WATER POLLUTION RESEARCH 2019; 80:487-498. [PMID: 31596260 DOI: 10.2166/wst.2019.293] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Methylparaben and triclosan are antimicrobial agents widely used as preservatives in a variety of personal care and pharmaceutical products. Wastewater is considered the main source of these compounds in the environment. Expanded granular sludge bed (EGSB) reactors are a high rate technology for wastewater treatment based on biological processes and have been shown to be efficient in removing different types of compounds; however, little is known about the effect of contaminants such as methylparaben and triclosan on their behavior and effectiveness. In this study, we evaluate and compare the microbial and physicochemical behavior of EGSB systems during methylparaben and triclosan removal. The presence of different concentrations of pollutants had an influence on the cluster organization of microbial communities, especially bacteria. However, this did not affect the stability and performance of the EGSB systems. The banding patterns of the denaturing gradient gel electrophoresis of archaea demonstrated the constant presence and abundance of Methanosaeta concilii throughout all stages of operation, showing that this microorganism played a fundamental role in the stability of the reactors for the production of methane. The type of compound and its concentration influenced the expression of the mcrA and ACAs genes; however, these changes did not alter the stability and performance of the EGSB systems.
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Affiliation(s)
- Laura Castrillon
- GDCON Research Group, Faculty of Engineering, University Research Headquarters (SIU), University of Antioquia, Street 70 # 52-21, Medellín, Colombia
| | - Yudy Andrea Londoño
- Faculty of Engineering, Technological of Antioquia - University Institution, Street 78B # 72A-220, Medellín, Colombia
| | - Nancy J Pino
- School of Microbiology, University of Antioquia, Street 70 # 52-21, Medellín, Colombia E-mail:
| | - Gustavo A Peñuela
- GDCON Research Group, Faculty of Engineering, University Research Headquarters (SIU), University of Antioquia, Street 70 # 52-21, Medellín, Colombia
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Westerholm M, Castillo MDP, Chan Andersson A, Jahre Nilsen P, Schnürer A. Effects of thermal hydrolytic pre-treatment on biogas process efficiency and microbial community structure in industrial- and laboratory-scale digesters. WASTE MANAGEMENT (NEW YORK, N.Y.) 2019; 95:150-160. [PMID: 31351600 DOI: 10.1016/j.wasman.2019.06.004] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/29/2018] [Revised: 05/20/2019] [Accepted: 06/03/2019] [Indexed: 05/28/2023]
Abstract
This study examined the impact of thermal hydrolysis process (THP) pre-treatment on anaerobic co-digestion of wastewater sludge and household waste and assessed whether THP was vital to achieve higher process capacity. Performance data were collected for both industrial- and laboratory-scale digesters and response in microbial community structure was evaluated by Illumina sequencing. Implementation of THP at the industrial-scale plant increased methane yield by 15% and enhanced substrate degradability. Possibility to extend the sludge retention time due to a higher solid content of the substrate, sanitisation of the digestate and improved fertiliser quality of the digestate were other industrial-scale benefits of THP installation. Continuously-fed laboratory-scale digesters were fed THP-treated or untreated substrate at an organic loading rate (OLR) of 5 g volatile solid (VS)/L/day, a feeding rate necessary at the corresponding industrial-scale plant to meet the estimated population increase within the municipality. The results indicated that the plant could have increased the capacity with unimpaired stability independently of THP installation, even though the retention time was significantly shortened during operation with untreated substrate. Microbial community analyses revealed increased contribution of the Clostridia class after THP installation in industrial-scale digesters and positive correlation between Firmicutes:Bacteriodetes and methane yield in all digesters. Differentiated profiles in laboratory-scale digesters indicated that a temperature increase from 37 to 42 °C in association with THP installation and altered substrate composition were strong determining factors shaping the microbial community. Overall, these findings can assist industrial-scale plants in choosing management strategies aimed at improving the efficiency of anaerobic digestion processes.
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Affiliation(s)
- M Westerholm
- Department of Molecular Sciences, Swedish University of Agricultural Sciences, Uppsala BioCenter, Box 7025, SE-750 07 Uppsala, Sweden.
| | | | | | | | - A Schnürer
- Department of Molecular Sciences, Swedish University of Agricultural Sciences, Uppsala BioCenter, Box 7025, SE-750 07 Uppsala, Sweden
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24
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Fischer MA, Güllert S, Refai S, Künzel S, Deppenmeier U, Streit WR, Schmitz RA. Long-term investigation of microbial community composition and transcription patterns in a biogas plant undergoing ammonia crisis. Microb Biotechnol 2019; 12:305-323. [PMID: 30381904 PMCID: PMC6390037 DOI: 10.1111/1751-7915.13313] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2017] [Revised: 08/22/2018] [Accepted: 08/24/2018] [Indexed: 02/01/2023] Open
Abstract
Ammonia caused disturbance of biogas production is one of the most frequent incidents in regular operation of biogas reactors. This study provides a detailed insight into the microbial community of a mesophilic, full-scale biogas reactor (477 kWh h-1 ) fed with maize silage, dried poultry manure and cow manure undergoing initial process disturbance by increased ammonia concentration. Over a time period of 587 days, the microbial community of the reactor was regularly monitored on a monthly basis by high-throughput amplicon sequencing of the archaeal and bacterial 16S rRNA genes. During this sampling period, the total ammonia concentrations varied between 2.7 and 5.8 g l-1 [NH4 + -N]. To gain further inside into the active metabolic pathways, for selected time points metatranscriptomic shotgun analysis was performed allowing the quantification of marker genes for methanogenesis, hydrolysis and syntrophic interactions. The results obtained demonstrated a microbial community typical for a mesophilic biogas plant. However in response to the observed changing process conditions (e.g. increasing NH4 + levels, changing feedstock composition), the microbial community reacted highly flexible by changing and adapting the community composition. The Methanosarcina-dominated archaeal community was shifted to a Methanomicrobiales-dominated archaeal community in the presence of increased ammonia conditions. A similar trend as in the phylogenetic composition was observed in the transcription activity of genes coding for enzymes involved in acetoclastic methanogenesis and syntrophic acetate oxidations (Codh/Acs and Fthfs). In accordance, Clostridia simultaneously increased under elevated ammonia concentrations in abundance and were identified as the primary syntrophic interaction partner with the now Methanomicrobiales-dominated archaeal community. In conclusion, overall stable process performance was maintained during increased ammonia concentration in the studied reactor based on the microbial communities' ability to flexibly respond by reorganizing the community composition while remaining functionally stable.
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MESH Headings
- Ammonia/metabolism
- Archaea/classification
- Archaea/genetics
- Bacteria/classification
- Bacteria/genetics
- Biofuels/microbiology
- Bioreactors/microbiology
- Cluster Analysis
- Culture Media/chemistry
- DNA, Archaeal/chemistry
- DNA, Archaeal/genetics
- DNA, Bacterial/chemistry
- DNA, Bacterial/genetics
- DNA, Ribosomal/chemistry
- DNA, Ribosomal/genetics
- Longitudinal Studies
- Microbiota
- Phylogeny
- RNA, Ribosomal, 16S/genetics
- Sequence Analysis, DNA
- Transcription, Genetic
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Affiliation(s)
- Martin Alexander Fischer
- Institute of General MicrobiologyChristian‐Albrechts‐University KielAm Botanischen Garten 1‐924118KielGermany
| | - Simon Güllert
- Institute of General MicrobiologyChristian‐Albrechts‐University KielAm Botanischen Garten 1‐924118KielGermany
- Institute of Microbiology & BiotechnologyUniversity HamburgBiozentrum Klein FlottbekHamburgGermany
| | - Sarah Refai
- Institute of Microbiology & BiotechnologyUniversity BonnMeckenheimer Allee 16853115BonnGermany
| | - Sven Künzel
- Max‐Planck‐Institute of Evolutionary BiologyAugust‐Thienemann‐Str. 224306PlönGermany
| | - Uwe Deppenmeier
- Institute of Microbiology & BiotechnologyUniversity BonnMeckenheimer Allee 16853115BonnGermany
| | - Wolfgang R. Streit
- Institute of Microbiology & BiotechnologyUniversity HamburgBiozentrum Klein FlottbekHamburgGermany
| | - Ruth Anne Schmitz
- Institute of General MicrobiologyChristian‐Albrechts‐University KielAm Botanischen Garten 1‐924118KielGermany
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25
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Sudmalis D, Millah SK, Gagliano MC, Butré CI, Plugge CM, Rijnaarts HHM, Zeeman G, Temmink H. The potential of osmolytes and their precursors to alleviate osmotic stress of anaerobic granular sludge. WATER RESEARCH 2018; 147:142-151. [PMID: 30308373 DOI: 10.1016/j.watres.2018.09.059] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/03/2018] [Revised: 09/27/2018] [Accepted: 09/29/2018] [Indexed: 06/08/2023]
Abstract
Increasing amounts of saline (waste)water with high concentrations of organic pollutants are generated globally. In the anaerobic (waste)water treatment domain, high salt concentrations are repeatedly reported to inhibit methanogenic activity and strategies to overcome this toxicity are needed. Current research focuses on the use of potential osmolyte precursor compounds for osmotic stress alleviation in granular anaerobic sludges upon exposure to hypersalinity shocks. Glutamic acid, aspartic acid, lysine, potassium, gelatine, and tryptone were tested for their potential to alleviate osmotic stress in laboratory grown and full - scale granular sludge. The laboratory grown granular sludge was adapted to 5 (R5) and 20 (R20) g Na+/L. Full-scale granular sludge was obtained from internal circulation reactors treating tannery (waste)water with influent conductivity of 29.2 (Do) and 14.1 (Li) mS/cm. In batch experiments which focused on specific methanogenic activity (SMA), R5 granular sludge was exposed to a hypersalinity shock of 20 g Na+/L. The granular sludge of Do and Li was exposed to a hypersalinity shock of 10 g Na+/L with sodium acetate as the sole carbon source. The effects on R20 granular sludge were studied at the salinity level to which the sludge was already adapted, namely 20 g Na+/L. Dosing of glutamic acid, aspartic acid, gelatine, and tryptone resulted in increased SMA compared to only acetate fed batches. In batches with added glutamic acid, the SMA increased by 115% (Li), 35% (Do) and 9% (R20). With added aspartic acid, SMA increased by 72% (Li), 26% (Do), 12% (R5) and 7% (R20). The addition of tryptone resulted in SMA increases of 36% (R5), 17% (R20), 179% (Li), and 48% (Do), whereas added gelatine increased the SMA by 30% (R5), 14% (R20), 23% (Li), and 13% (Do). The addition of lysine, meanwhile, gave negative effects on SMA of all tested granular sludges. Potassium at sea water Na/K ratio (27.8 w/w) had a slight positive effect on SMA of Do (7.3%) and Li (10.1%), whereas at double the sea water ratio (13.9% w/w) had no pronounced positive effect. R20 granular sludge was also exposed to hyposalinity shock from 20 down to 5 g Na+/L. Glutamate and N-acetyl-β-lysine were excreted by microbial consortium in anaerobic granular sludge adapted to 20 g Na+/L upon this exposure to hyposalinity. A potential consequence when applying these results is that saline streams containing specific and hydrolysable proteins can be anaerobically treated without additional dosing of osmolytes.
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Affiliation(s)
- D Sudmalis
- Sub-department of Environmental Technology, Wageningen University and Research, Bornse Weilanden 9, 6708 WG, Wageningen, the Netherlands.
| | - S K Millah
- Sub-department of Environmental Technology, Wageningen University and Research, Bornse Weilanden 9, 6708 WG, Wageningen, the Netherlands
| | - M C Gagliano
- Laboratory of Microbiology, Wageningen University and Research, Stippeneng 4, 6708WE, Wageningen, the Netherlands
| | - C I Butré
- Laboratory of Food Chemistry, Wageningen University and Research, Wageningen, the Netherlands
| | - C M Plugge
- Laboratory of Microbiology, Wageningen University and Research, Stippeneng 4, 6708WE, Wageningen, the Netherlands
| | - H H M Rijnaarts
- Sub-department of Environmental Technology, Wageningen University and Research, Bornse Weilanden 9, 6708 WG, Wageningen, the Netherlands
| | - G Zeeman
- Sub-department of Environmental Technology, Wageningen University and Research, Bornse Weilanden 9, 6708 WG, Wageningen, the Netherlands
| | - H Temmink
- Sub-department of Environmental Technology, Wageningen University and Research, Bornse Weilanden 9, 6708 WG, Wageningen, the Netherlands
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26
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Raes SMT, Jourdin L, Carlucci L, van den Bruinhorst A, Strik DPBTB, Buisman CJN. Water-Based Synthesis of Hydrophobic Ionic Liquids [N 8888][oleate] and [P 666,14][oleate] and their Bioprocess Compatibility. ChemistryOpen 2018; 7:878-884. [PMID: 30410852 PMCID: PMC6217098 DOI: 10.1002/open.201800187] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2018] [Indexed: 11/16/2022] Open
Abstract
The conversion of organic waste streams into carboxylic acids as renewable feedstocks results in relatively dilute aqueous streams. Carboxylic acids can be recovered from such streams by using liquid-liquid extraction. Hydrophobic ionic liquids (ILs) are novel extractants that can be used for carboxylic acid recovery. To integrate these ILs as in situ extractants in several biotechnological applications, the IL must be compatible with the bioprocesses. Herein the ILs [P666,14][oleate] and [N8888][oleate] were synthesized in water and their bioprocess compatibility was assessed by temporary exposure to an aqueous phase that contained methanogenic granular sludge. After transfer of the sludge into fresh medium, [P666,14][oleate]-exposed granules were completely inhibited. Granules exposed to [N8888][oleate] sustained anaerobic digestion activity, albeit moderately reduced. The IL contaminants, bromide (5-500 ppm) and oleate (10-4000 ppm), were shown not to inhibit the methanogenic conversion of acetate. [P666,14] was identified as a bioprocess-incompatible component. However, our results showed that [N8888][oleate] was bioprocess compatible and, therefore, has potential applications in bioprocesses.
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Affiliation(s)
- Sanne M. T. Raes
- Sub-department of Environmental TechnologyWageningen University & ResearchAxis-Z, Bornse Weilanden 96708 WGWageningenThe Netherlands
| | - Ludovic Jourdin
- Sub-department of Environmental TechnologyWageningen University & ResearchAxis-Z, Bornse Weilanden 96708 WGWageningenThe Netherlands
| | - Livio Carlucci
- Sub-department of Environmental TechnologyWageningen University & ResearchAxis-Z, Bornse Weilanden 96708 WGWageningenThe Netherlands
| | - Adriaan van den Bruinhorst
- Laboratory of Physical ChemistryDepartment of Chemical Engineering and ChemistryEindhoven University of TechnologyP.O. Box 513, 5600MBEindhovenThe Netherlands
| | - David P. B. T. B. Strik
- Sub-department of Environmental TechnologyWageningen University & ResearchAxis-Z, Bornse Weilanden 96708 WGWageningenThe Netherlands
| | - Cees J. N. Buisman
- Sub-department of Environmental TechnologyWageningen University & ResearchAxis-Z, Bornse Weilanden 96708 WGWageningenThe Netherlands
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27
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Shen D, Langenheder S, Jürgens K. Dispersal Modifies the Diversity and Composition of Active Bacterial Communities in Response to a Salinity Disturbance. Front Microbiol 2018; 9:2188. [PMID: 30294307 PMCID: PMC6159742 DOI: 10.3389/fmicb.2018.02188] [Citation(s) in RCA: 26] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2017] [Accepted: 08/27/2018] [Indexed: 11/21/2022] Open
Abstract
Dispersal can influence the response of bacterial communities to environmental changes and disturbances. However, the extent to which dispersal contributes to the community response in dependence of the character and strength of the disturbance remains unclear. Here, we conducted a transplant experiment using dialysis bags in which bacterioplankton originating from brackish and marine regions of the Saint Lawrence Estuary were reciprocally incubated in the two environments for 5 days. Dispersal treatments were set-up by subjecting half of the microcosms in each environment to an exchange of cells between the marine and brackish assemblages at a daily exchange rate of 6% (v/v), and the other half of microcosms were kept as the non-dispersal treatments. Bacterial 16S rRNA sequencing was then used to examine the diversity and composition of the active communities. Alpha diversity of the marine communities that were exposed to the brackish environment was elevated greatly by dispersal, but declined in the absence of dispersal. This indicates that dispersal compensated the loss of diversity in the marine communities after a disturbance by introducing bacterial taxa that were able to thrive and coexist with the remaining community members under brackish conditions. On the contrary, alpha diversity of the brackish communities was not affected by dispersal in either environment. Furthermore, dispersal led to an increase in similarity between marine and brackish communities in both of the environments, with a greater similarity when the communities were incubated in the brackish environment. These results suggest that the higher initial diversity in the brackish than in the marine starting community made the resident community less susceptible to dispersing bacteria. Altogether, this study shows that dispersal modifies the diversity and composition of the active communities in response to a salinity disturbance, and enables the local adjustment of specific bacteria under brackish environmental conditions.
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Affiliation(s)
- Dandan Shen
- Section of Biological Oceanography, Leibniz Institute for Baltic Sea Research, Warnemünde, Germany
| | - Silke Langenheder
- Department of Ecology and Genetic/Limnology, Evolutionary Biology Centre, Uppsala University, Uppsala, Sweden
| | - Klaus Jürgens
- Section of Biological Oceanography, Leibniz Institute for Baltic Sea Research, Warnemünde, Germany
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28
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Temperature control as key factor for optimal biohydrogen production from thermomechanical pulping wastewater. Biochem Eng J 2018. [DOI: 10.1016/j.bej.2018.05.027] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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29
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Franchi O, Bovio P, Ortega-Martínez E, Rosenkranz F, Chamy R. Active and total microbial community dynamics and the role of functional genes bamA and mcrA during anaerobic digestion of phenol and p-cresol. BIORESOURCE TECHNOLOGY 2018; 264:290-297. [PMID: 29852419 DOI: 10.1016/j.biortech.2018.05.060] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/12/2018] [Revised: 05/12/2018] [Accepted: 05/17/2018] [Indexed: 06/08/2023]
Abstract
The aim of the present work was to investigate the dynamics of microbial community at DNA and RNA level and the role of bamA and mcrA gene during anaerobic digestion of phenol and p-cresol. Anaerobic digestion was conducted in batch reactors and microbial community dynamics was analysed. Results showed that active microbial community was quite dissimilar in comparison to the total microbial community. Syntrophorhabdus and Bacillus were the dominant active bacterial genera whereas Methanosaeta together with Methanobacterium showed the highest potential activity in the Archaea domain indicating a relevant role of these microorganisms in the anaerobic process. Ecological Networks revealed dissimilar interactions at DNA and RNA level, being the latter a better descriptor of the known roles of dominant OTUs. QRT-PCR results showed that expression of bamA gene correlated positively with instantaneous degradation rate proving for first time its functionality and its relationship with the kinetics of the process.
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Affiliation(s)
- Oscar Franchi
- Escuela de Ingeniería Bioquímica, Pontificia Universidad Católica de Valparaíso, Avenida Brasil 2085, Valparaíso, Chile.
| | - Patricia Bovio
- Laboratorio de Ecología Microbiana, Departamento de Bioquímica y Genómica Microbiana, Instituto de Investigaciones Biológicas Clemente Estable, Avenida Italia 3318, Montevideo, Uruguay
| | - Eduardo Ortega-Martínez
- Escuela de Ingeniería Bioquímica, Pontificia Universidad Católica de Valparaíso, Avenida Brasil 2085, Valparaíso, Chile
| | - Francisca Rosenkranz
- Núcleo Biotecnología Curauma, Pontificia Universidad Católica de Valparaíso, Avenida Universidad 330, Valparaíso, Chile
| | - Rolando Chamy
- Escuela de Ingeniería Bioquímica, Pontificia Universidad Católica de Valparaíso, Avenida Brasil 2085, Valparaíso, Chile; Núcleo Biotecnología Curauma, Pontificia Universidad Católica de Valparaíso, Avenida Universidad 330, Valparaíso, Chile
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30
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De Vrieze J, De Waele M, Boeckx P, Boon N. Isotope Fractionation in Biogas Allows Direct Microbial Community Stability Monitoring in Anaerobic Digestion. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2018; 52:6704-6713. [PMID: 29432683 DOI: 10.1021/acs.est.8b00723] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Process monitoring of anaerobic digestion is typically based on operational parameters, such as pH and volatile fatty acid concentration, that are lagging on actual microbial community performance. In this study, 13C isotope fractionation in CH4 and CO2 in the biogas was used to monitor process stability of anaerobic digestion in response to salt stress. A gradual and pulsed increase in salt concentration resulted in a decrease in methane production. No clear shift in δ13CH4 was observed in response to the gradual increase in salt concentration, and δ13CO2 of the biogas showed only a clear shift after process failure, compared with the control. In contrast, both δ13CH4 and δ13CO2 in the biogas changed in response to the pulsed increase in salt concentration. This change preceded the decrease in methane production. A significantly different bacterial and archaeal community profile was observed between the DNA and RNA level, which was also reflected in a different relation with the δ13CH4 and δ13CO2 values. This shows that isotope fractionation in the biogas can predict process stability in anaerobic digestion, as it directly reflects shifts in the total and active microbial community, yet, due to its temporal character, further validation is needed.
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Affiliation(s)
- Jo De Vrieze
- Center for Microbial Ecology and Technology (CMET) , Ghent University , Coupure Links 653 , B-9000 Gent , Belgium
| | - Michiel De Waele
- Center for Microbial Ecology and Technology (CMET) , Ghent University , Coupure Links 653 , B-9000 Gent , Belgium
| | - Pascal Boeckx
- Isotope Bioscience Laboratory - ISOFYS , Ghent University , Coupure Links 653 , B-9000 Gent , Belgium
| | - Nico Boon
- Center for Microbial Ecology and Technology (CMET) , Ghent University , Coupure Links 653 , B-9000 Gent , Belgium
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31
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Ziels RM, Svensson BH, Sundberg C, Larsson M, Karlsson A, Yekta SS. Microbial rRNA gene expression and co-occurrence profiles associate with biokinetics and elemental composition in full-scale anaerobic digesters. Microb Biotechnol 2018; 11:694-709. [PMID: 29633555 PMCID: PMC6011980 DOI: 10.1111/1751-7915.13264] [Citation(s) in RCA: 31] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2017] [Revised: 03/05/2018] [Accepted: 03/07/2018] [Indexed: 11/29/2022] Open
Abstract
This study examined whether the abundance and expression of microbial 16S rRNA genes were associated with elemental concentrations and substrate conversion biokinetics in 20 full-scale anaerobic digesters, including seven municipal sewage sludge (SS) digesters and 13 industrial codigesters. SS digester contents had higher methane production rates from acetate, propionate and phenyl acetate compared to industrial codigesters. SS digesters and industrial codigesters were distinctly clustered based on their elemental concentrations, with higher concentrations of NH3 -N, Cl, K and Na observed in codigesters. Amplicon sequencing of 16S rRNA genes and reverse-transcribed 16S rRNA revealed divergent grouping of microbial communities between mesophilic SS digesters, mesophilic codigesters and thermophilic digesters. Higher intradigester distances between Archaea 16S rRNA and rRNA gene profiles were observed in mesophilic codigesters, which also had the lowest acetate utilization biokinetics. Constrained ordination showed that microbial rRNA and rRNA gene profiles were significantly associated with maximum methane production rates from acetate, propionate, oleate and phenyl acetate, as well as concentrations of NH3 -N, Fe, S, Mo and Ni. A co-occurrence network of rRNA gene expression confirmed the three main clusters of anaerobic digester communities based on active populations. Syntrophic and methanogenic taxa were highly represented within the subnetworks, indicating that obligate energy-sharing partnerships play critical roles in stabilizing the digester microbiome. Overall, these results provide new evidence showing that different feed substrates associate with different micronutrient compositions in anaerobic digesters, which in turn may influence microbial abundance, activity and function.
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Affiliation(s)
- Ryan M Ziels
- Department of Civil Engineering, The University of British Columbia, Vancouver, BC, Canada
| | - Bo H Svensson
- Department of Thematic Studies-Environmental Change, Linköping University, Linköping, Sweden.,Biogas Research Center, Linköping University, Linköping, Sweden
| | - Carina Sundberg
- Department of Thematic Studies-Environmental Change, Linköping University, Linköping, Sweden
| | - Madeleine Larsson
- Department of Thematic Studies-Environmental Change, Linköping University, Linköping, Sweden.,Biogas Research Center, Linköping University, Linköping, Sweden
| | | | - Sepehr Shakeri Yekta
- Department of Thematic Studies-Environmental Change, Linköping University, Linköping, Sweden.,Biogas Research Center, Linköping University, Linköping, Sweden
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32
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De Vrieze J, Pinto AJ, Sloan WT, Ijaz UZ. The active microbial community more accurately reflects the anaerobic digestion process: 16S rRNA (gene) sequencing as a predictive tool. MICROBIOME 2018; 6:63. [PMID: 29609653 PMCID: PMC5879801 DOI: 10.1186/s40168-018-0449-9] [Citation(s) in RCA: 42] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/04/2016] [Accepted: 03/16/2018] [Indexed: 05/04/2023]
Abstract
BACKGROUND Amplicon sequencing methods targeting the 16S rRNA gene have been used extensively to investigate microbial community composition and dynamics in anaerobic digestion. These methods successfully characterize amplicons but do not distinguish micro-organisms that are actually responsible for the process. In this research, the archaeal and bacterial community of 48 full-scale anaerobic digestion plants were evaluated on DNA (total community) and RNA (active community) level via 16S rRNA (gene) amplicon sequencing. RESULTS A significantly higher diversity on DNA compared with the RNA level was observed for archaea, but not for bacteria. Beta diversity analysis showed a significant difference in community composition between the DNA and RNA of both bacteria and archaea. This related with 25.5 and 42.3% of total OTUs for bacteria and archaea, respectively, that showed a significant difference in their DNA and RNA profiles. Similar operational parameters affected the bacterial and archaeal community, yet the differentiating effect between DNA and RNA was much stronger for archaea. Co-occurrence networks and functional prediction profiling confirmed the clear differentiation between DNA and RNA profiles. CONCLUSIONS In conclusion, a clear difference in active (RNA) and total (DNA) community profiles was observed, implying the need for a combined approach to estimate community stability in anaerobic digestion.
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Affiliation(s)
- Jo De Vrieze
- Center for Microbial Ecology and Technology (CMET), Ghent University, Coupure Links 653, B-9000 Ghent, Belgium
- Infrastructure and Environment Research Division, School of Engineering, University of Glasgow, Rankine Building, Oakfield Avenue, Glasgow, G12 8LT UK
| | - Ameet J. Pinto
- Northeastern University, 360 Huntington Avenue, Boston, MA 02115 USA
| | - William T. Sloan
- Infrastructure and Environment Research Division, School of Engineering, University of Glasgow, Rankine Building, Oakfield Avenue, Glasgow, G12 8LT UK
| | - Umer Zeeshan Ijaz
- Infrastructure and Environment Research Division, School of Engineering, University of Glasgow, Rankine Building, Oakfield Avenue, Glasgow, G12 8LT UK
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33
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The use of extracellular DNA as a proxy for specific microbial activity. Appl Microbiol Biotechnol 2018; 102:2885-2898. [PMID: 29423636 PMCID: PMC5847193 DOI: 10.1007/s00253-018-8786-y] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2017] [Revised: 01/11/2018] [Accepted: 01/14/2018] [Indexed: 02/07/2023]
Abstract
The ubiquity and relevance of extracellular DNA (exDNA) are well-known and increasingly gaining importance in many fields of application such as medicine and environmental microbiology. Although sources and types of exDNA are manifold, ratios of specific DNA-molecules inside and outside of living cells can give reliable information about the activity of entire systems and of specific microbial groups or species. Here, we introduce a method to discriminate between internal (iDNA), as well as bound and free exDNA, and evaluate various DNA fractions and related ratios (ex:iDNA) regarding their applicability to be used as a fast, convenient, and reliable alternative to more tedious RNA-based activity measurements. In order to deal with microbial consortia that can be regulated regarding their activity, we tested and evaluated the proposed method in comparison to sophisticated dehydrogenase- and RNA-based activity measurements with two anaerobic microbial consortia (anaerobic fungi and syntrophic archaea and a microbial rumen consortium) and three levels of resolution (overall activity, total bacteria, methanogenic archaea). Furthermore, we introduce a 28S rRNA gene-specific primer set and qPCR protocol, targeting anaerobic fungi (Neocallimastigomycota). Our findings show that the amount of actively released free exDNA (fDNA) strongly correlates with different activity measurements and is thus suggested to serve as a proxy for microbial activity.
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Sudmalis D, Gagliano MC, Pei R, Grolle K, Plugge CM, Rijnaarts HHM, Zeeman G, Temmink H. Fast anaerobic sludge granulation at elevated salinity. WATER RESEARCH 2018; 128:293-303. [PMID: 29107914 DOI: 10.1016/j.watres.2017.10.038] [Citation(s) in RCA: 48] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/21/2017] [Revised: 09/28/2017] [Accepted: 10/18/2017] [Indexed: 05/07/2023]
Abstract
It is commonly accepted that high salt concentrations negatively affect microbial activity in biological wastewater treatment reactors such as upflow anaerobic sludge blanket (UASB) reactors. Microbial aggregation in such reactors is equally important. It is well documented that anaerobic granules, when exposed to high salinity become weak and disintegrate, causing wash-out, operational problems and decreasing process performance. In this research, the possibility of microbial granule formation from dispersed biomass was investigated at salinity levels of 5 and 20 g Na+/L. High removal efficiencies of soluble influent organics were achieved at both salinity levels and this was accompanied by fast and robust formation of microbial granules. The process was found to be stable for the entire operational period of 217 days. As far as we know this is the first time it has been demonstrated that stable granule formation is possible at a salinity level as high as 20 g Na+/L. Methanosaeta was identified as the dominant methanogen at both salinity levels. Streptococcus spp. and bacteria belonging to the family Lachnospiraceae were identified as the dominant microbial population at 5 and 20 and g Na+/L, respectively.
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Affiliation(s)
- D Sudmalis
- Sub-department of Environmental Technology, Wageningen University and Research, Bornse Weilanden 9, 6708 WG, Wageningen, The Netherlands.
| | - M C Gagliano
- Laboratory of Microbiology, Wageningen University and Research, Stippeneng 4, 6708WE, Wageningen, The Netherlands
| | - R Pei
- Sub-department of Environmental Technology, Wageningen University and Research, Bornse Weilanden 9, 6708 WG, Wageningen, The Netherlands
| | - K Grolle
- Sub-department of Environmental Technology, Wageningen University and Research, Bornse Weilanden 9, 6708 WG, Wageningen, The Netherlands
| | - C M Plugge
- Laboratory of Microbiology, Wageningen University and Research, Stippeneng 4, 6708WE, Wageningen, The Netherlands
| | - H H M Rijnaarts
- Sub-department of Environmental Technology, Wageningen University and Research, Bornse Weilanden 9, 6708 WG, Wageningen, The Netherlands
| | - G Zeeman
- Sub-department of Environmental Technology, Wageningen University and Research, Bornse Weilanden 9, 6708 WG, Wageningen, The Netherlands
| | - H Temmink
- Sub-department of Environmental Technology, Wageningen University and Research, Bornse Weilanden 9, 6708 WG, Wageningen, The Netherlands
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Dessì P, Porca E, Haavisto J, Lakaniemi AM, Collins G, Lens PNL. Composition and role of the attached and planktonic microbial communities in mesophilic and thermophilic xylose-fed microbial fuel cells. RSC Adv 2018; 8:3069-3080. [PMID: 35541202 PMCID: PMC9077550 DOI: 10.1039/c7ra12316g] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2017] [Accepted: 01/08/2018] [Indexed: 11/21/2022] Open
Abstract
A mesophilic (37 °C) and a thermophilic (55 °C) two-chamber microbial fuel cell (MFC) were studied and compared for their power production from xylose and the anode-attached, membrane-attached and planktonic microbial communities involved.
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Affiliation(s)
- Paolo Dessì
- Laboratory of Chemistry and Bioengineering
- Tampere University of Technology
- FI-33101 Tampere
- Finland
| | - Estefania Porca
- Microbial Communities Laboratory
- School of Natural Sciences
- National University of Ireland Galway
- Galway
- Ireland
| | - Johanna Haavisto
- Laboratory of Chemistry and Bioengineering
- Tampere University of Technology
- FI-33101 Tampere
- Finland
| | - Aino-Maija Lakaniemi
- Laboratory of Chemistry and Bioengineering
- Tampere University of Technology
- FI-33101 Tampere
- Finland
| | - Gavin Collins
- Microbial Communities Laboratory
- School of Natural Sciences
- National University of Ireland Galway
- Galway
- Ireland
| | - Piet N. L. Lens
- Laboratory of Chemistry and Bioengineering
- Tampere University of Technology
- FI-33101 Tampere
- Finland
- UNESCO-IHE
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Amha YM, Anwar MZ, Brower A, Jacobsen CS, Stadler LB, Webster TM, Smith AL. Inhibition of anaerobic digestion processes: Applications of molecular tools. BIORESOURCE TECHNOLOGY 2018; 247:999-1014. [PMID: 28918349 DOI: 10.1016/j.biortech.2017.08.210] [Citation(s) in RCA: 30] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/08/2017] [Revised: 08/30/2017] [Accepted: 08/31/2017] [Indexed: 05/25/2023]
Abstract
Inhibition of anaerobic digestion (AD) due to perturbation caused by substrate composition and/or operating conditions can significantly reduce performance. Such perturbations could be limited by elucidating microbial community response to inhibitors and devising strategies to increase community resilience. To this end, advanced molecular methods are increasingly being applied to study the AD microbiome, a diverse community of microbial populations with complex interactions. This literature review of AD inhibition studies indicates that inhibitory concentrations are highly variable, likely stemming from differences in community structure or activity profile and previous exposure to inhibitors. More recent molecular methods such as 'omics' tools, substrate mapping, and real-time sequencing are helping to unravel the complexity of AD inhibition by elucidating physiological and ecological significance of key microbial populations. The AD community must strive towards developing predictive abilities to avoid system failure (e.g., real-time tracking of an indicator species) to improve resilience of AD systems.
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Affiliation(s)
- Yamrot M Amha
- Astani Department of Civil and Environmental Engineering, University of Southern California, 3620 South Vermont Avenue, Los Angeles, CA 90089, USA
| | - Muhammad Zohaib Anwar
- mBioInform ApS, Ole Maaloes Vej 3, 2200 Copenhagen N, Denmark; Department of Environmental Sciences, Aarhus University, Frederiksborgvej, 399, 4000 Roskilde, Denmark
| | - Andrew Brower
- Department of Civil and Environmental Engineering, Rice University, 6100 Main Street, TX 77005, USA
| | - Carsten S Jacobsen
- mBioInform ApS, Ole Maaloes Vej 3, 2200 Copenhagen N, Denmark; Department of Environmental Sciences, Aarhus University, Frederiksborgvej, 399, 4000 Roskilde, Denmark
| | - Lauren B Stadler
- Department of Civil and Environmental Engineering, Rice University, 6100 Main Street, TX 77005, USA
| | - Tara M Webster
- Soil and Crop Sciences Section, Cornell University, 306 Tower Road, Ithaca, NY 14853, USA
| | - Adam L Smith
- Astani Department of Civil and Environmental Engineering, University of Southern California, 3620 South Vermont Avenue, Los Angeles, CA 90089, USA.
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Westerholm M, Müller B, Singh A, Karlsson Lindsjö O, Schnürer A. Detection of novel syntrophic acetate-oxidizing bacteria from biogas processes by continuous acetate enrichment approaches. Microb Biotechnol 2017; 11:680-693. [PMID: 29239113 PMCID: PMC6011928 DOI: 10.1111/1751-7915.13035] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2017] [Revised: 11/11/2017] [Accepted: 11/12/2017] [Indexed: 11/27/2022] Open
Abstract
To enrich syntrophic acetate‐oxidizing bacteria (SAOB), duplicate chemostats were inoculated with sludge from syntrophic acetate oxidation (SAO)‐dominated systems and continuously supplied with acetate (0.4 or 7.5 g l−1) at high‐ammonia levels. The chemostats were operated under mesophilic (37°C) or thermophilic (52°C) temperature for about six hydraulic retention times (HRT 28 days) and were sampled over time. Irrespective of temperature, a methane content of 64–69% and effluent acetate level of 0.4–1.0 g l−1 were recorded in chemostats fed high acetate. Low methane production in the low‐acetate chemostats indicated that the substrate supply was below the threshold for methanization of acetate via SAO. Novel representatives within the family Clostridiales and genus Syntrophaceticus (class Clostridia) were identified to represent putative SAOB candidates in mesophilic and thermophilic conditions respectively. Known SAOB persisted at low relative abundance in all chemostats. The hydrogenotrophic methanogens Methanoculleus bourgensis (mesophilic) and Methanothermobacter thermautotrophicus (thermophilic) dominated archaeal communities in the high‐acetate chemostats. In line with the restricted methane production in the low‐acetate chemostats, methanogens persisted at considerably lower abundance in these chemostats. These findings strongly indicate involvement in SAO and tolerance to high ammonia levels of the species identified here, and have implications for understanding community function in stressed anaerobic processes.
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Affiliation(s)
- Maria Westerholm
- Uppsala BioCenter, Department of Molecular Sciences, Swedish University of Agricultural Sciences, Box 7025, SE-750 07, Uppsala, Sweden
| | - Bettina Müller
- Uppsala BioCenter, Department of Molecular Sciences, Swedish University of Agricultural Sciences, Box 7025, SE-750 07, Uppsala, Sweden
| | - Abhijeet Singh
- Uppsala BioCenter, Department of Molecular Sciences, Swedish University of Agricultural Sciences, Box 7025, SE-750 07, Uppsala, Sweden
| | - Oskar Karlsson Lindsjö
- Uppsala BioCenter, Department of Molecular Sciences, Swedish University of Agricultural Sciences, Box 7025, SE-750 07, Uppsala, Sweden
| | - Anna Schnürer
- Uppsala BioCenter, Department of Molecular Sciences, Swedish University of Agricultural Sciences, Box 7025, SE-750 07, Uppsala, Sweden
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Amha YM, Sinha P, Lagman J, Gregori M, Smith AL. Elucidating microbial community adaptation to anaerobic co-digestion of fats, oils, and grease and food waste. WATER RESEARCH 2017; 123:277-289. [PMID: 28672212 DOI: 10.1016/j.watres.2017.06.065] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/07/2017] [Revised: 06/22/2017] [Accepted: 06/22/2017] [Indexed: 06/07/2023]
Abstract
Despite growing interest in co-digestion and demonstrated process improvements (e.g., enhanced stability and biogas production), few studies have evaluated how co-digestion impacts the anaerobic digestion (AD) microbiome. Three sequential bench-scale respirometry experiments were conducted at thermophilic temperature (50 °C) with various combinations of primary sludge (PS); thickened waste activated sludge (TWAS); fats, oils, and grease (FOG); and food waste (FW). Two additional runs were then performed to evaluate microbial inhibition at higher organic fractions of FOG (30-60% volatile solids loading (VSL; v/v)). Co-digestion of PS, TWAS, FOG, and FW resulted in a 26% increase in methane production relative to digestion of PS and TWAS. A substantial lag time was observed in biogas production for vessels with FOG addition that decreased by more than half in later runs, likely due to adaptation of the microbial community. 30% FOG with 10% FW showed the highest increase in methane production, increasing 53% compared to digestion of PS and TWAS. FOG addition above 50% VSL was found to be inhibitory with and without FW addition and resulted in volatile fatty acid (VFA) accumulation. Methane production was linked with high relative activity and abundance of syntrophic fatty-acid oxidizers alongside hydrogenotrophic methanogens, signaling the importance of interspecies interactions in AD. Specifically, relative activity of Syntrophomonas was significantly correlated with methane production. Further, methane production increased over subsequent runs along with methyl coenzyme M reductase (mcrA) gene expression, a functional gene in methanogens, suggesting temporal adaptation of the microbial community to co-digestion substrate mixtures. The study demonstrated the benefits of co-digestion in terms of performance enhancement and enrichment of key active microbial populations.
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Affiliation(s)
- Yamrot M Amha
- Astani Department of Civil and Environmental Engineering, University of Southern California, 3620 South Vermont Avenue, Los Angeles, CA 90089, USA
| | - Pooja Sinha
- Astani Department of Civil and Environmental Engineering, University of Southern California, 3620 South Vermont Avenue, Los Angeles, CA 90089, USA
| | - Jewls Lagman
- Astani Department of Civil and Environmental Engineering, University of Southern California, 3620 South Vermont Avenue, Los Angeles, CA 90089, USA
| | - Matt Gregori
- Divert, Inc., 23 Bradford Street, Concord, MA 01742, USA; Southern California Gas Company, 555 West Fifth Street, Los Angeles, CA 90013, USA
| | - Adam L Smith
- Astani Department of Civil and Environmental Engineering, University of Southern California, 3620 South Vermont Avenue, Los Angeles, CA 90089, USA.
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Yousefzadeh S, Ahmadi E, Gholami M, Ghaffari HR, Azari A, Ansari M, Miri M, Sharafi K, Rezaei S. A comparative study of anaerobic fixed film baffled reactor and up-flow anaerobic fixed film fixed bed reactor for biological removal of diethyl phthalate from wastewater: a performance, kinetic, biogas, and metabolic pathway study. BIOTECHNOLOGY FOR BIOFUELS 2017; 10:139. [PMID: 28580013 PMCID: PMC5452402 DOI: 10.1186/s13068-017-0826-9] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/08/2017] [Accepted: 05/22/2017] [Indexed: 05/29/2023]
Abstract
BACKGROUND Phthalic acid esters, including diethyl phthalate (DEP), which are considered as top-priority and hazardous pollutants, have received significant attention over the last decades. It is vital for industries to select the best treatment technology, especially when the DEP concentration in wastewater is high. Meanwhile, anaerobic biofilm-based reactors are considered as a promising option. Therefore, in the present study, for the biological removal of DEP from synthetic wastewater, two different anaerobic biofilm-based reactors, including anaerobic fixed film baffled reactor (AnFFBR) and up-flow anaerobic fixed film fixed bed reactor (UAnFFFBR), were compared from kinetic and performance standpoints. As in the previous studies, only the kinetic coefficients have been calculated and the relationship between kinetic coefficients and their interpretation has not been evaluated, the other aim of the present study was to fill this research gap. RESULTS In optimum conditions, 90.31 and 86.91% of COD as well as 91.11 and 88.72% of DEP removal were achieved for the AnFFBR and UAnFFFBR, respectively. According to kinetic coefficients (except biomass yield), the AnFFBR had better performance as it provided a more favorable condition for microbial growth. The Grau model was selected as the best mathematical model for designing and predicting the bioreactors' performance due to its high coefficients of determination (0.97 < R2). With regard to the insignificant variations of the calculated Grau kinetic coefficients (KG) when the organic loading rate (with constant HRT) increased, it can be concluded that both of the bioreactors can tolerate high organic loading rate and their performance is not affected by the applied DEP concentrations. CONCLUSIONS Both the bioreactors were capable of treating low-to-high strength DEP wastewater; however, according to the experimental results and obtained kinetic coefficients, the AnFFBR indicated higher performance. Although the AnFFBR can be considered as a safer treatment option than the UAnFFFBR due to its lower DEP concentrations in sludge, the UAnFFFBR had lower VSS/TSS ratio and sludge yield, which could make it more practical for digestion. Finally, both the bioreactors showed considerable methane yield; however, compared to the UAnFFFBR, the AnFFBR had more potential for bioenergy production. Although both the selected bioreactors achieved nearly 90% of DEP removal, they can only be considered as pre-treatment methods according to the standard regulations and should be coupled with further technology.
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Affiliation(s)
- Samira Yousefzadeh
- Department of Environmental Health Engineering, Aradan School of Public Health and Paramedical, Semnan University of Medical Sciences, Semnan, Iran
- Department of Environmental Health Engineering, School of Public Health, Tehran University of Medical Sciences, Tehran, Iran
| | - Ehsan Ahmadi
- Students’ Scientific Research Center (SSRC), Tehran University of Medical Sciences, Tehran, Iran
- Department of Environmental Health Engineering, School of Public Health, Kashan University of Medical Sciences, Kashan, Iran
| | - Mitra Gholami
- Occupational Health Research Center (OHRC), Iran University of Medical Sciences, Tehran, Iran
- Department of Environmental Health Engineering, School of Public Health, Iran University of Medical Sciences, Tehran, Iran
| | - Hamid Reza Ghaffari
- Department of Environmental Health Engineering, Faculty of Health, Hormozgan University of Medical Sciences, Bandar Abbas, Iran
| | - Ali Azari
- Department of Environmental Health Engineering, School of Public Health, Kashan University of Medical Sciences, Kashan, Iran
| | - Mohsen Ansari
- Environmental Science and Technology Research Center, Department of Environmental Health, School of Public Health, Shahid Sadoughi University of Medical Sciences, Yazd, Iran
| | - Mohammad Miri
- Department of Environmental Health, School of Public Health, Sabzevar University of Medical Sciences, Sabzevar, Iran
| | - Kiomars Sharafi
- Research Center for Environmental Determinants of Health (RCEDH), Kermanshah University of Medical Sciences, Kermanshah, Iran
| | - Soheila Rezaei
- Social Determinants of Health Research Center, Yasuj University of Medical Sciences, Yasuj, Iran
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Performance and microbial community variations of anaerobic digesters under increasing tetracycline concentrations. Appl Microbiol Biotechnol 2017; 101:5505-5517. [PMID: 28365798 PMCID: PMC5486833 DOI: 10.1007/s00253-017-8253-1] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2017] [Accepted: 03/14/2017] [Indexed: 12/11/2022]
Abstract
The impact of different concentrations of tetracycline on the performance of anaerobic treatment was evaluated. Results revealed that for all of the tested tetracycline concentrations, no major sustained impact on methane production was observed. Instead, a significant increase in propionic acid was observed in the reactor subjected to the highest concentration of tetracycline (20 mg/L). Microbial community analyses suggest that an alternative methanogenic pathway, specifically that of methanol-utilizing methanogens, may be important for ensuring the stability of methane production in the presence of high tetracycline concentrations. In addition, the accumulation of propionate was due to an increase in volatile fatty acids (VFA)-producing bacteria coupled with a reduction in propionate utilizers. An increase in the abundance of tetracycline resistance genes associated with ribosomal protection proteins was observed after 30 days of exposure to high concentrations of tetracycline, while other targeted resistance genes showed no significant changes. These findings suggest that anaerobic treatment processes can robustly treat wastewater with varying concentrations of antibiotics while also deriving value-added products and minimizing the dissemination of associated antibiotic resistance genes.
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