scholarly journals Rock Surface Fungi in Deep Continental Biosphere—Exploration of Microbial Community Formation with Subsurface In Situ Biofilm Trap

2020 ◽  
Vol 9 (1) ◽  
pp. 64
Author(s):  
Maija Nuppunen-Puputti ◽  
Riikka Kietäväinen ◽  
Lotta Purkamo ◽  
Pauliina Rajala ◽  
Merja Itävaara ◽  
...  
Keyword(s):  
Significant Proportion ◽  
Debaryomyces Hansenii ◽  
Fungal Communities ◽  
Fungal Colonization ◽  
Rock Surface ◽  
Mica Schist ◽  
Deep Subsurface ◽  
Bacterial Phyla ◽  
In Situ Conditions

Fungi have an important role in nutrient cycling in most ecosystems on Earth, yet their ecology and functionality in deep continental subsurface remain unknown. Here, we report the first observations of active fungal colonization of mica schist in the deep continental biosphere and the ability of deep subsurface fungi to attach to rock surfaces under in situ conditions in groundwater at 500 and 967 m depth in Precambrian bedrock. We present an in situ subsurface biofilm trap, designed to reveal sessile microbial communities on rock surface in deep continental groundwater, using Outokumpu Deep Drill Hole, in eastern Finland, as a test site. The observed fungal phyla in Outokumpu subsurface were Basidiomycota, Ascomycota, and Mortierellomycota. In addition, significant proportion of the community represented unclassified Fungi. Sessile fungal communities on mica schist surfaces differed from the planktic fungal communities. The main bacterial phyla were Firmicutes, Proteobacteria, and Actinobacteriota. Biofilm formation on rock surfaces is a slow process and our results indicate that fungal and bacterial communities dominate the early surface attachment process, when pristine mineral surfaces are exposed to deep subsurface ecosystems. Various fungi showed statistically significant cross-kingdom correlation with both thiosulfate and sulfate reducing bacteria, e.g., SRB2 with fungi Debaryomyces hansenii.

scholarly journals Phylogenetic Analysis and In Situ Identification of Bacteria Community Composition in an Acidic Sphagnum Peat Bog

2006 ◽  
Vol 72 (3) ◽  
pp. 2110-2117 ◽  
Author(s):  
Svetlana N. Dedysh ◽  
Timofei A. Pankratov ◽  
Svetlana E. Belova ◽  
Irina S. Kulichevskaya ◽  
Werner Liesack
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Community Composition ◽  
Significant Proportion ◽  
Peat Bog ◽  
Rrna Gene ◽  
Bacterial Phyla ◽  
Cell Counts ◽  
Novel Strategy

ABSTRACT The Bacteria community composition in an acidic Sphagnum peat bog (pH 3.9 to 4.5) was characterized by a combination of 16S rRNA gene clone library analysis, rRNA-targeted fluorescence in situ hybridization (FISH), and cultivation. Among 84 environmental 16S rRNA gene clones, a set of only 16 cloned sequences was closely related (≥95% similarity) to taxonomically described organisms. Main groups of clones were affiliated with the Acidobacteria (24 clones), Alphaproteobacteria (20), Verrucomicrobia (13), Actinobacteria (8), Deltaproteobacteria (4), Chloroflexi (3), and Planctomycetes (3). The proportion of cells that hybridized with oligonucleotide probes specific for members of the domains Bacteria (EUB338-mix) and Archaea (ARCH915 and ARC344) accounted for only 12 to 22% of the total cell counts. Up to 24% of the EUB338-positive cells could be assigned by FISH to specific bacterial phyla. Alphaproteobacteria and Planctomycetes were the most numerous bacterial groups (up to 1.3 × 107 and 1.1 × 107 cells g−1 peat, respectively). In contrast to conventional plating techniques, a novel biofilm-mediated enrichment approach allowed us to isolate some representatives of predominant Bacteria groups, such as Acidobacteria and Planctomycetes. This novel strategy has great potential to enable the isolation of a significant proportion of the peat bog bacterial diversity.

scholarly journals Diversity of Biodeteriorative Bacterial and Fungal Consortia in Winter and Summer on Historical Sandstone of the Northern Pergola, Museum of King John III’s Palace at Wilanow, Poland

2021 ◽  
Vol 11 (2) ◽  
pp. 620
Author(s):  
Magdalena Dyda ◽  
Agnieszka Laudy ◽  
Przemyslaw Decewicz ◽  
Krzysztof Romaniuk ◽  
Martyna Ciezkowska ◽  
...  
Keyword(s):  
Seasonal Changes ◽  
Microbial Community Composition ◽  
Fungal Communities ◽  
Bacterial Strains ◽  
Microbial Biodiversity ◽  
Acidophilic Bacteria ◽  
Almost All ◽  
Generation Sequencing ◽  
King John

The aim of the presented investigation was to describe seasonal changes of microbial community composition in situ in different biocenoses on historical sandstone of the Northern Pergola in the Museum of King John III’s Palace at Wilanow (Poland). The microbial biodiversity was analyzed by the application of Illumina-based next-generation sequencing methods. The metabarcoding analysis allowed for detecting lichenized fungi taxa with the clear domination of two genera: Lecania and Rhinocladiella. It was also observed that, during winter, the richness of fungal communities increased in the biocenoses dominated by lichens and mosses. The metabarcoding analysis showed 34 bacterial genera, with a clear domination of Sphingomonas spp. across almost all biocenoses. Acidophilic bacteria from Acidobacteriaceae and Acetobacteraceae families were also identified, and the results showed that a significant number of bacterial strains isolated during the summer displayed the ability to acidification in contrast to strains isolated in winter, when a large number of isolates displayed alkalizing activity. Other bacteria capable of nitrogen fixation and hydrocarbon utilization (including aromatic hydrocarbons) as well as halophilic microorganisms were also found. The diversity of organisms in the biofilm ensures its stability throughout the year despite the differences recorded between winter and summer.

scholarly journals Longitudinal Characterization of the Gut Bacterial and Fungal Communities in Yaks

2021 ◽  
Vol 7 (7) ◽  
pp. 559
Author(s):  
Yaping Wang ◽  
Yuhang Fu ◽  
Yuanyuan He ◽  
Muhammad Fakhar-e-Alam Kulyar ◽  
Mudassar Iqbal ◽  
...  
Keyword(s):  
Natural Aging ◽  
Fungal Communities ◽  
Significant Shift ◽  
Mature Adult ◽  
Bacterial Phyla ◽  
Development Stages ◽  
Composition And Structure ◽  
Intestinal Functions ◽  
Development Phases

Development phases are important in maturing immune systems, intestinal functions, and metabolism for the construction, structure, and diversity of microbiome in the intestine during the entire life. Characterizing the gut microbiota colonization and succession based on age-dependent effects might be crucial if a microbiota-based therapeutic or disease prevention strategy is adopted. The purpose of this study was to reveal the dynamic distribution of intestinal bacterial and fungal communities across all development stages in yaks. Dynamic changes (a substantial difference) in the structure and composition ratio of the microbial community were observed in yaks that matched the natural aging process from juvenile to natural aging. This study included a significant shift in the abundance and proportion of bacterial phyla (Planctomycetes, Firmicutes, Bacteroidetes, Spirochaetes, Tenericutes, Proteobacteria, and Cyanobacteria) and fungal phyla (Chytridiomycota, Mortierellomycota, Neocallimastigomycota, Ascomycota, and Basidiomycota) across all development stages in yaks. As yaks grew older, variation reduced, and diversity increased as compared to young yaks. In addition, the intestine was colonized by a succession of microbiomes that coalesced into a more mature adult, including Ruminococcaceae_UCG-005, Romboutsia, Prevotellaceae_UCG-004, Blautia, Clostridium_sensu_stricto_1, Ruminococcus_1, Ruminiclostridium_5, Rikenellaceae_RC9_gut_group, Alloprevotella, Acetitomaculum, Lachnospiraceae_NK3A20_group, Bacteroides, Treponema_2, Olsenella, Escherichia-Shigella, Candidatus_Saccharimonas, and fungal communities Mortierella, Lomentospora, Orpinomyces, and Saccharomyces. In addition, microorganisms that threaten health, such as Escherichia-Shigella, Mortierella, Lomentospora and Hydrogenoanaerobacterium, Corynebacterium_1, Trichosporon, and Coprinellus, were enriched in young and old yaks, respectively, although all yaks were healthy. The significant shifts in microflora composition and structure might reflect adaptation of gut microbiome, which is associated with physicochemical conditions changes and substrate availability in the gut across all development periods of yaks.

scholarly journals Discrete element analysis of the punching behaviour of a secured drapery system: from laboratory characterization to idealized in situ conditions

2021 ◽  
Author(s):  
Antonio Pol ◽  
Fabio Gabrieli ◽  
Lorenzo Brezzi
Keyword(s):  
Mechanical Response ◽  
Steel Wire ◽  
Discrete Element ◽  
Wire Mesh ◽  
Steel Plates ◽  
Loading Conditions ◽  
Element Analysis ◽  
In Situ Conditions ◽  
Wire Meshes

AbstractIn this work, the mechanical response of a steel wire mesh panel against a punching load is studied starting from laboratory test conditions and extending the results to field applications. Wire meshes anchored with bolts and steel plates are extensively used in rockfall protection and slope stabilization. Their performances are evaluated through laboratory tests, but the mechanical constraints, the geometry and the loading conditions may strongly differ from the in situ conditions leading to incorrect estimations of the strength of the mesh. In this work, the discrete element method is used to simulate a wire mesh. After validation of the numerical mesh model against experimental data, the punching behaviour of an anchored mesh panel is investigated in order to obtain a more realistic characterization of the mesh mechanical response in field conditions. The dimension of the punching element, its position, the anchor plate size and the anchor spacing are varied, providing analytical relationships able to predict the panel response in different loading conditions. Furthermore, the mesh panel aspect ratio is analysed showing the existence of an optimal value. The results of this study can provide useful information to practitioners for designing secured drapery systems, as well as for the assessment of their safety conditions.

scholarly journals Relating Induced in Situ Conditions of Raw Chicken Breast Meat to Pinking

2004 ◽  
Vol 83 (1) ◽  
pp. 109-118 ◽  
Author(s):  
K. Holownia ◽  
M.S. Chinnan ◽  
A.E. Reynolds ◽  
JW Davis
Keyword(s):  
Chicken Breast ◽  
Breast Meat ◽  
In Situ Conditions ◽  
Chicken Breast Meat

scholarly journals A microscopic approach to investigate bacteria under in situ conditions in sea-ice samples

2001 ◽  
Vol 33 ◽  
pp. 304-310 ◽  
Author(s):  
Karen Junge ◽  
Christopher Krembs ◽  
Jody Deming ◽  
Aaron Stierle ◽  
Hajo Eicken
Keyword(s):  
Sea Ice ◽  
Pore Space ◽  
Three Dimensional ◽  
Epifluorescence Microscopy ◽  
Microbial Populations ◽  
Microbial Life ◽  
Dimensional Network ◽  
In Situ Conditions ◽  
Fluorescent Stain

AbstractMicrobial populations and activity within sea ice have been well described based on bulk measurements from melted sea-ice samples. However, melting destroys the micro-environments within the ice matrix and does not allow for examination of microbial populations at a spatial scale relevant to the organism. Here, we describe the development of a new method allowing for microscopic observations of bacteria localized within the three-dimensional network of brine inclusions in sea ice under in situ conditions. Conventional bacterial staining procedures, using the DNA-specific fluorescent stain DAPI, epifluorescence microscopy and image analysis, were adapted to examine bacteria and their associations with various surfaces within microtomed sections of sea ice at temperatures from −2° to −15°C. The utility and sensitivity of the method were demonstrated by analyzing artificial sea-ice preparations of decimal dilutions of a known bacterial culture. When applied to natural, particle-rich sea ice, the method allowed distinction between bacteria and particles at high magnification. At lower magnifications, observations of bacteria could be combined with those of other organisms and with morphology and particle content of the pore space. The method described here may ultimately aid in discerning constraints on microbial life at extremely low temperatures.

Trial applications at gymnasiums of in-situ sound absorption measurement method by ensemble averaging technique

2021 ◽  
Vol 263 (2) ◽  
pp. 4532-4537
Author(s):  
Toru Otsuru ◽  
Reiji Tomiku ◽  
Noriko Okamoto ◽  
Siwat Lawanwadeekul
Keyword(s):  
Measurement Method ◽  
Sound Absorption ◽  
Glass Wool ◽  
Absorption Measurement ◽  
Ensemble Averaging ◽  
Averaging Technique ◽  
In Situ Conditions ◽  
Measurement Consistency ◽  
Absorption Characteristics

The authors have been published a series of papers on a measurement method for sound absorption characteristics of materials using ensemble averaging technique, i.e., EA method. The papers' results included measurement mechanisms, measurement uncertainty, and so on. Herein, to examine adaptability, especially in in-situ conditions, the EA method is applied to measure absorption characteristics of materials installed in two gymnasiums. A glass-wool panel with the dimension of 0.5 m by 0.5 m by 0.05 m and with the density of 32 kg m^-3 was brought around and measured to check the measurement consistency. Several measurements were conducted during badminton plays were undergoing. Measured sound absorption coefficients revealed that most results agree well with those measured in reverberation rooms. Certain improvement is necessary for the specimen brought to the in-situ measurement to keep the consistency. The inconsistency is considered to originate from unstable conditions between the specimen and floor.

Mechanics of Geological Materials

1985 ◽  
Vol 38 (10) ◽  
pp. 1256-1260 ◽  
Author(s):  
M. M. Carroll
Keyword(s):  
Solid Mechanics ◽  
Oil And Gas ◽  
Rock Fracture ◽  
Energy Resource ◽  
Earthquake Hazard ◽  
Soil Liquefaction ◽  
Failure Behavior ◽  
Geological Materials ◽  
In Situ Conditions

Needed advances in various areas of energy resource recovery, underground construction, earthquake hazard reduction, and conventional and nuclear defense depend critically on the development of improved theories for mechanical and thermal behavior of geological materials. The areas include oil and gas (including off-shore and Arctic production), mining and in situ recovery, geothermal production, nuclear waste isolation, under-ocean tunneling, underground storage, nuclear test containment, and effects of surface explosions. The needed developments, some of which are detailed in earlier National Academy of Science reports, include constitutive theories for inelastic deformation, failure, and post-failure behavior, influence of microstructure and macrostructure, rock fracture (direct breakage, hydraulic fracture explosive fracture), frictional sliding, soil liquefaction, mechanics of ice, determination of in situ conditions, flow through porous media, and thermal effects. Advances in mechanics of geological materials will require adaptation of some established techniques in rheology, metal plasticity, composite materials, mixtures, etc., and also the development of some entirely new ideas and methods. The complicated nature of rocks and soils, the wide ranges of stress, temperature, strain rate, etc., the interactions encountered in geotechnical processes, and the vastly different dimensions and time scales involved, lead to a host of challenging problems in solid mechanics.

Dynamic Impact Measurements on Crossings, in Free Floating and In-Situ Conditions

2014 ◽  
Author(s):  
M. A. Boogaard ◽  
A. L. Schwab ◽  
Z. Li
Keyword(s):  
Finite Element ◽  
Condition Monitoring ◽  
Impact Loading ◽  
Dynamic Behaviour ◽  
Element Model ◽  
Mode Shapes ◽  
Dynamic Impact ◽  
In Situ Test ◽  
In Situ Conditions

As vibration based condition monitoring requires a good understanding of the dynamic behaviour of the structure, a good model is needed. At the TU Delft a train borne monitoring system is being developed which currently focusses on crossings. Crossings are prone to very fast degradation due to impact loading. In this paper a finite element model of a free floating frog is presented and validated up to a 100 Hz using dynamic impact measurements. The mode shapes of the free floating frog are then also compared to some preliminary results from an in-situ test. This comparison shows that the in-situ frequencies can be up to twice the free floating frequency.

scholarly journals The optimization of pressure controller for deep earth drilling

2019 ◽  
Vol 23 (Suppl. 3) ◽  
pp. 877-885 ◽  
Author(s):  
Zhi He ◽  
Ling Chen ◽  
Tong Lu ◽  
Jing Xie
Keyword(s):  
Contact Surface ◽  
The Finite Element Method ◽  
Spherical Contact ◽  
The Earth ◽  
In Situ Conditions ◽  
Strength Material ◽  
Pressure Controller ◽  
Optimization Schemes ◽  
Deep Exploration

Obtaining samples of deep in-situ conditions is first step to explore the mysteries of the earth requires. In view of the current problems of insufficient pressure maintaining capacity of the existing equipment, we independently developed the in-situ fidelity coring system and designed the osmotic pressure controller based on the geometry of square cover. The finite element method is used to analyze the pressure maintaining capacity of the pressure controller. It is found that it would produce large deformation and stress concentration when the pressure was applied on, resulting in low pressure maintaining capacity. Then the structural optimization schemes of conical sealing contact surfaces with 25?, 35?, 40?, and 45? apex angles and spherical sealing contact surface are proposed, and the spherical contact surface structure is found to be optimal. Finally, the material is optimized, and a higher strength material such as 45CrNiMoVA alloy is used. Based on the pressure controller with spherical contact surface, the pressure maintaining capacity increased to nearly 70 MPa. The research results obtained in this paper provide the basis for the development of the coring system, the deep exploration of the earth and the establishment of rock mechanics theory.

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