scholarly journals Mobile mud layer underneath the desiccated maar lake of Rincón de Parangueo and insights into its microbial fingerprints

2021 ◽  
Vol 38 (3) ◽  
pp. 178-192
Author(s):  
Janet Sánchez-Sánchez ◽  
Mariano Cerca ◽  
Rocío J Alcántara-Hernández ◽  
José Jorge Aranda-Gómez ◽  
Dora Carreón-Freyre ◽  
...  
Keyword(s):  
Microbial Communities ◽  
Subsurface Layer ◽  
Dynamic Environment ◽  
Chemical Characterization ◽  
Environmental Dna ◽  
Gas Production ◽  
Gas Content ◽  
Silty Clay ◽  
Probable Role ◽  
Maar Lake

We surveyed a subsurface layer of saturated mobile mud and its microbial fingerprints below the desiccated bottom of a maar lake at Rincón de Parangueo (RP), Mexico. A multi-scale approach was followed using geological fieldwork, coring of the sediments, ground penetrating radar survey, physico-chemical characterization including X-ray diffraction and scanning electron microscope, and high-throughput DNA sequencing methods. The mobile mud is an organic-rich silty clay, with high values of alkalinity, volumetric water content and conductivity. Mud mobility has been attributed to overpressure caused by disequilibrium compaction of sediments related to active subsidence and pore overpressure produced by an input of groundwater and gas content in the sediments and resulted in a diverse set of structures related to mud tectonics such as injection domes and fluid seeps through fractures. Extraction and sequencing of sedimentary environmental DNA in the mud layer were performed for Bacteria and Archaea. Despite the small number of samples obtained, the microbial fingerprint from the sedimentary environmental DNA at subsurface shares similarities with the microbial communities identified on the crater surface. Additionally, we identify the DNA of specific methanogenic microorganisms in the mud, such as Bathyarchaeia, Methanomassiliicoccales, and Methanobacteriales, and we speculate on their probable role in gas production and pore overpressure in the mud layer. The underground mud at Rincón de Parangueo represents a geologically dynamic environment with conditions that are favorable for the thriving of microbial communities.

scholarly journals Cyanobacterial Mats in Calcite-Precipitating Serpentinite-Hosted Alkaline Springs of the Voltri Massif, Italy

2020 ◽  
Vol 9 (1) ◽  
pp. 62
Author(s):  
Aysha Kamran ◽  
Kathrin Sauter ◽  
Andreas Reimer ◽  
Theresa Wacker ◽  
Joachim Reitner ◽  
...  
Keyword(s):  
Microbial Communities ◽  
Microbial Mats ◽  
Environmental Dna ◽  
Cyanobacterial Mats ◽  
Cyanobacterial Community ◽  
Mineral Precipitation ◽  
Community Based ◽  
Specific Adaptation ◽  
Carbonate Buildups ◽  
Generation Sequencing

(1) Background: Microbial communities in terrestrial, calcifying high-alkaline springs are not well understood. In this study, we investigate the structure and composition of microbial mats in ultrabasic (pH 10–12) serpentinite springs of the Voltri Massif (Italy). (2) Methods: Along with analysis of chemical and mineralogical parameters, environmental DNA was extracted and subjected to analysis of microbial communities based upon next-generation sequencing. (3) Results: Mineral precipitation and microbialite formation occurred, along with mat formation. Analysis of the serpentinite spring microbial community, based on Illumina sequencing of 16S rRNA amplicons, point to the relevance of alkaliphilic cyanobacteria, colonizing carbonate buildups. Cyanobacterial groups accounted for up to 45% of all retrieved sequences; 3–4 taxa were dominant, belonging to the filamentous groups of Leptolyngbyaceae, Oscillatoriales, and Pseudanabaenaceae. The cyanobacterial community found at these sites is clearly distinct from creek water sediment, highlighting their specific adaptation to these environments.

Chemical characterization and in vitro fermentation ofBrassicastraw treated with the aerobic fungus,Trametes versicolor

2011 ◽  
Vol 91 (4) ◽  
pp. 695-702 ◽  
Author(s):  
J. E. Ramirez-Bribiesca ◽  
Y. Wang ◽  
L. Jin ◽  
T. Canam ◽  
J. R. Town ◽  
...  
Keyword(s):  
Mutant Strain ◽  
Trametes Versicolor ◽  
Lignin Degradation ◽  
Volatile Fatty Acids ◽  
Degradation Products ◽  
Chemical Characterization ◽  
Gas Production ◽  
In Vitro Fermentation ◽  
Lignin Degradation Products

Ramirez-Bribiesca, J. E., Wang, Y., Jin, L., Canam, T., Town, J. R., Tsang, A., Dumonceaux, T. J. and McAllister, T. A. 2011. Chemical characterization and in vitro fermentation of Brassica straw treated with the aerobic fungus, Trametes versicolor . Can. J. Anim. Sci. 91: 695–702. Brassica napus straw (BNS) was either not treated or was treated with two strains of Trametes versicolor; 52J (wild type) or m4D (a cellobiose dehydrogenase-deficient mutant) with four treatments: (i) untreated control (C-BNS), (ii) 52J (B-52J), (iii) m4D (B-m4D) or (iv) m4D+glucose (B-m4Dg). Glucose was provided to encourage growth of the mutant strain. All treatments with T. versicolor decreased (P<0.05) neutral-detergent fibre and increased (P<0.05) protein and the concentration of lignin degradation products in straw. Ergosterol was highest (P<0.05) in straw treated with B-52J, suggesting it generated the most fungal biomass. Insoluble lignin was reduced (P<0.05) in straw treated with B-52J and B-m4D, but not with B-m4Dg. Mannose and xylose concentration were generally higher (P<0.05) in straw treated with fungi, whereas glucose and galactose were lower as compared with C-BNS. The four treatments above were subsequently assessed in rumen in vitro fermentations, along with BNS treated with 2 mL g−1of 5 N NaOH. Concentrations of total volatile fatty acids after 24 and 48h were lower (P<0.05) in incubations that contained BNS treated with T. versicolor as compared with C-BNSor NaOH-treated BNS. Compared with C-BNS, in vitrodry matter disappearance and gas production were increased (P<0.05) by NaOH, but not by treatment with either strain of T. versicolor. Although treatment with T. versicolor did release more lignin degradation products, it did not appear to provide more degradable carbohydrate to in vitro rumen microbial populations, even when a mutant strain with compromised carbohydrate metabolism was utilized. Production of secondary compounds by the aerobic fungi may inhibit rumen microbial fermentation.

scholarly journals Assessing high-throughput environmental DNA extraction methods for meta-barcode characterization of aquatic microbial communities

2018 ◽  
Vol 17 (1) ◽  
pp. 37-49 ◽  
Author(s):  
Abdolrazagh Hashemi Shahraki ◽  
Subba Rao Chaganti ◽  
Daniel Heath
Keyword(s):  
Microbial Community ◽  
Microbial Communities ◽  
High Throughput ◽  
Environmentally Friendly ◽  
Environmental Dna ◽  
Magnetic Bead ◽  
Extraction Methods ◽  
Environmental Research ◽  
Rrna Gene

Abstract The characterization of microbial community dynamics using genomic methods is rapidly expanding, impacting many fields including medical, ecological, and environmental research and applications. One of the biggest challenges for such studies is the isolation of environmental DNA (eDNA) from a variety of samples, diverse microbes, and widely variable community compositions. The current study developed environmentally friendly, user safe, economical, and high throughput eDNA extraction methods for mixed aquatic microbial communities and tested them using 16 s rRNA gene meta-barcoding. Five different lysis buffers including (1) cetyltrimethylammonium bromide (CTAB), (2) digestion buffer (DB), (3) guanidinium isothiocyanate (GITC), (4) sucrose lysis (SL), and (5) SL-CTAB, coupled with four different purification methods: (1) phenol-chloroform-isoamyl alcohol (PCI), (2) magnetic Bead-Robotic, (3) magnetic Bead-Manual, and (4) membrane-filtration were tested for their efficacy in extracting eDNA from recreational freshwater samples. Results indicated that the CTAB-PCI and SL-Bead-Robotic methods yielded the highest genomic eDNA concentrations and succeeded in detecting the core microbial community including the rare microbes. However, our study recommends the SL-Bead-Robotic eDNA extraction protocol because this method is safe, environmentally friendly, rapid, high-throughput and inexpensive.

scholarly journals Analisis dan Optimasi Pengaruh Suhu Gas Umpan Pada Kinerja Acid Gas Removal Unit

2021 ◽  
Vol 1 ◽  
pp. 67-74
Author(s):  
Iwan Febrianto ◽  
Nelson Saksono
Keyword(s):  
Simulation Model ◽  
Flow Rate ◽  
Gas Production ◽  
Gas Content ◽  
Production Test ◽  
Reservoir Pressure ◽  
Gas Temperature ◽  
Separation Unit ◽  
Acid Gas ◽  
Gas Removal

The Gas Gathering Station (GGS) in field X processes gas from 16 (sixteen) wells before being sent as selling gas to consumers. The sixteen wells have decreased in good pressure since 2011, thus affecting the performance of the Acid Gas Removal Unit (AGRU). The GGS consists of 4 (four) main units, namely the Manifold Production/ Test, the Separation Unit, the Acid Gas Removal Unit (AGRU), the Dehydration Unit (DHU). The AGRU facility in field X is designed to reduce the acid gas content of CO2 by 21 mol% with a feed gas capacity of 85 MMSCFD. A decrease in reservoir pressure caused an increase in the feed gas temperature and an increase in the water content of the well. Based on the reconstruction of the design conditions into the simulation model, the amine composition consisting of MDEA 0.3618 and MEA 0.088 wt fraction to obtain the percentage of CO2 in the 5% mol sales gas. The increase in feed gas temperature up to 146 F caused foaming due to condensation of heavy hydrocarbon fraction, so it was necessary to modify it by adding a chiller to cool the feed gas to become 60 F. Based on the simulation, the flow rate of gas entering AGRU could reach 83.7 MMSCFD. There was an increase in gas production of 38.1 MMSCFD and condensate of 1,376 BPD. Economically, the addition of a chiller modification project was feasible with the economical parameters of NPV US$ 132,000,000, IRR 348.19%, POT 0.31 year and PV ratio 19.06.

Extracellular DNA in environmental samples: Occurrence, extraction, quantification, and impact on microbial biodiversity assessment

2021 ◽  
Author(s):  
Sakcham Bairoliya ◽  
Jonas Koh Zhi Xiang ◽  
Bin Cao
Keyword(s):  
Dna Sequencing ◽  
Microbial Communities ◽  
Dna Extraction ◽  
Environmental Samples ◽  
Environmental Dna ◽  
Extracellular Dna ◽  
Biodiversity Assessment ◽  
Microbial Biodiversity ◽  
Technical Details ◽  
The Impact

Environmental DNA, i.e., DNA directly extracted from environmental samples, has been applied to understand microbial communities in the environments and to monitor contemporary biodiversity in the conservation context. Environmental DNA often contains both intracellular DNA (iDNA) and extracellular DNA (eDNA). eDNA can persist in the environment and complicate environmental DNA sequencing-based analyses of microbial communities and biodiversity. Although several studies acknowledged the impact of eDNA on DNA-based profiling of environmental communities, eDNA is still being neglected or ignored in most studies dealing with environmental samples. In this article, we summarize key findings on eDNA in environmental samples and discuss the methods used to extract and quantify eDNA as well as the importance of eDNA on the interpretation of experimental results. We then suggest several factors to consider when designing experiments and analyzing data to negate or determine the contribution of eDNA to environmental DNA-based community analyses. This field of research will be driven forward by: (i) carefully designing environmental DNA extraction pipelines by taking into consideration technical details in methods for eDNA extraction/removal and membrane-based filtration and concentration; (ii) quantifying eDNA in extracted environmental DNA using multiple methods including qPCR and fluorescent DNA binding dyes; (iii) carefully interpretating effect of eDNA on DNA-based community analyses at different taxonomic levels; and (iv) when possible, removing eDNA from environmental samples for DNA-based community analyses.

scholarly journals Microbial Eukaryotes in Oil Sands Environments: Heterotrophs in the Spotlight

2019 ◽  
Vol 7 (6) ◽  
pp. 178
Author(s):  
Elisabeth Richardson ◽  
Joel B. Dacks
Keyword(s):  
Microbial Communities ◽  
Oil Sands ◽  
Petroleum Industry ◽  
Environmental Dna ◽  
Environmental Damage ◽  
Oil Sand ◽  
Oil Reserves ◽  
Microbial Eukaryotes ◽  
Unconventional Oil ◽  
Hydrocarbon Extraction

Hydrocarbon extraction and exploitation is a global, trillion-dollar industry. However, for decades it has also been known that fossil fuel usage is environmentally detrimental; the burning of hydrocarbons results in climate change, and environmental damage during extraction and transport can also occur. Substantial global efforts into mitigating this environmental disruption are underway. The global petroleum industry is moving more and more into exploiting unconventional oil reserves, such as oil sands and shale oil. The Albertan oil sands are one example of unconventional oil reserves; this mixture of sand and heavy bitumen lying under the boreal forest of Northern Alberta represent one of the world’s largest hydrocarbon reserves, but extraction also requires the disturbance of a delicate northern ecosystem. Considerable effort is being made by various stakeholders to mitigate environmental impact and reclaim anthropogenically disturbed environments associated with oil sand extraction. In this review, we discuss the eukaryotic microbial communities associated with the boreal ecosystem and how this is affected by hydrocarbon extraction, with a particular emphasis on the reclamation of tailings ponds, where oil sands extraction waste is stored. Microbial eukaryotes, or protists, are an essential part of every global ecosystem, but our understanding of how they affect reclamation is limited due to our fledgling understanding of these organisms in anthropogenically hydrocarbon-associated environments and the difficulties of studying them. We advocate for an environmental DNA sequencing-based approach to determine the microbial communities of oil sands associated environments, and the importance of studying the heterotrophic components of these environments to gain a full understanding of how these environments operate and thus how they can be integrated with the natural watersheds of the region.

Regional parametric sensitivity analysis of Walloon Subgroup CSG production

2017 ◽  
Vol 57 (1) ◽  
pp. 277
Author(s):  
Daren Shields ◽  
Fengde Zhou ◽  
Joan Esterle
Keyword(s):  
Gas Production ◽  
Gas Content ◽  
Project Schedule ◽  
Coal Seam Gas ◽  
Simulation Experiments ◽  
Reservoir Performance ◽  
Well Completion ◽  
Reservoir Models ◽  
Single Well ◽  
Eastern Edge

Following two decades of intensive exploration, coal seam gas (CSG) production in the Surat Basin has begun to dramatically increase to meet the capacity of three newly completed CSG to liquefied natural gas (LNG) export projects. As the industry’s focus shifts from appraisal to exploitation, the production forecasts underpinning these LNG projects are being tested. In some cases predicted reservoir performance is found to be invalidated by observed production data, a condition that may require costly amendments to project schedule and scope. The deviation between actual and predicted reservoir performance can often be attributed to an incomplete understanding of parametric uncertainties present in static or dynamic reservoir models. To address this limitation, this study aims to explore the parametric controls upon CSG production behaviours with a series of simulation experiments. Distributions of reservoir parameters were compiled from 152 open-source well completion reports available in three areas along the eastern edge of the Surat Basin. These distributions were validated and then sampled to extract representative ranges for subsurface factors including gas content, permeability, net coal thickness, Langmuir pressure, Langmuir volume and drainage area. These inputs were used to construct single well radial models, which were then simulated to generate predictions of monthly and cumulative produced fluid volumes. The results of this study indicate that net coal thickness and lateral coal connectivity are the most sensitive factors with respect to cumulative gas production, while permeability was the single most influential parameter affecting the rate of gas production.

scholarly journals Plant Litter Type Dictates Microbial Communities Responsible for Greenhouse Gas Production in Amended Lake Sediments

2018 ◽  
Vol 9 ◽  
Author(s):  
Kurt M. Yakimovich ◽  
Erik J. S. Emilson ◽  
Michael A. Carson ◽  
Andrew J. Tanentzap ◽  
Nathan Basiliko ◽  
...  
Keyword(s):  
Microbial Communities ◽  
Greenhouse Gas ◽  
Lake Sediments ◽  
Gas Production ◽  
Plant Litter ◽  
Litter Type

Fuzzy Evaluation of Optimum Gasification Temperature of Sludge Derived Fuel

2013 ◽  
Vol 726-731 ◽  
pp. 1239-1244
Author(s):  
Chun Ping Li
Keyword(s):  
Heavy Metals ◽  
Heavy Metal ◽  
Bottom Ash ◽  
Gas Production ◽  
Gas Content ◽  
Fuzzy Evaluation ◽  
Combustible Gas ◽  
Gasification Temperature

A series of gasification experiments of sludge RDF was made by using independently developed gasification device. When sludge RDF was gasified at 300°C ~900°C, the trend of gas production was increased continuously with the peak of 65.5% at 900°C and the trend of bottom ash decreased continuously with the peak of 25.6% at 900°C, but tar yield firstly increased and then decreased, reaching maximum at 600 °C, about 31%. With the increase of the gasification temperature, combustible gas content of CO2 decreased significantly, while H2 , CO and CH4 increased. At 500 °C, heavy metal of Hg entirely evaporated into the atmosphere, volatile peak of Pb, Cd, As, Cu was in 800°C, volatile sort of 8 heavy metals was : Hg>Pb>Cd> As>Zn>Cu>Cr>Ni. The optimal gasification temperature for sludge RDF is 700 °C when the volatilization rate of heavy metals was moderate, gas production was higher and tar produced was smaller.

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