scholarly journals Environmental Surveillance Can Dynamically Track Ecological Changes in Enteroviruses

2019 ◽  
Vol 85 (24) ◽  
Author(s):  
Hiroki Ozawa ◽  
Hiromu Yoshida ◽  
Shuzo Usuku
Keyword(s):  
Multidimensional Scaling ◽  
Large Scale ◽  
Local Community ◽  
Amino Acid Sequences ◽  
Time Dependent ◽  
Small Scale ◽  
Dependent Manner ◽  
Environmental Surveillance ◽  
Ecological Changes ◽  
Over Time

ABSTRACT Environmental surveillance can be used to trace enteroviruses shed from human stool using a sewer network that is independent of symptomatic or asymptomatic infection. In this study, the local transmission of enteroviruses was analyzed using two wastewater treatment plants, which were relatively close to each other (15 km), designated as sentinels. Influent was collected at both sentinels once a month from 2013 to 2016, and viruses were isolated. Using neutralizing tests with type-specific polyclonal antisera and molecular typing, 933 isolates were identified as enteroviruses. Our results showed that the frequency of virus isolation varied for each serotype at the two sentinels in a time-dependent manner. Because echovirus 11 (Echo11) and coxsackievirus B5 isolates showed a high frequency and were difficult to distinguish, they were further grouped into various lineages based on the VP1 amino acid sequences. The prevalence of each lineage was visualized using multidimensional scaling. The results showed that Echo11 isolates of the same lineage were isolated continuously, similar to coxsackievirus B5 isolates of three lineages. Conversely, Echo1, Echo13, Echo18, Echo19, Echo20, Echo29, and Echo33 were isolated only once each. Our findings suggested that if an enterovirus is imported into the population, it may result in small-scale transmission, whereas if there are initially many infected individuals, it may be possible for the virus to spread to a wide area, beyond the local community, over time. In addition, our findings could provide insights into risk assessment of transmission for importation of poliovirus in polio-free countries and regions. IMPORTANCE In this study, we showed that environmental enterovirus surveillance can be used to monitor the propagation of nonpolio enteroviruses in addition to poliovirus detection. Since epidemiological studies of virus transmission based on the past were performed using specimens from humans, there were limitations to research design, such as specimen collection for implementation on a large-scale target population. However, environmental monitoring can dynamically track the ecological changes in enteroviruses in the region by monitoring viruses in chronological order and targeting the population within the area by monitoring viruses over time. We observed differences in the transmission of echovirus 11 and coxsackievirus B5 in the region according to lineage in a time-dependent manner and with a multidimensional scaling pattern.

Metagenomic and Metatranscriptomic Responses of Chemical Dispersant Application during a Marine Dilbit Spill

2022 ◽  
Author(s):  
Yiqi Cao ◽  
Baiyu Zhang ◽  
Charles W. Greer ◽  
Kenneth Lee ◽  
Qinhong Cai ◽  
...  
Keyword(s):  
Microbial Community ◽  
Late Stage ◽  
Large Scale ◽  
Community Dynamics ◽  
Early Stage ◽  
Small Scale ◽  
Rrna Gene ◽  
Shotgun Metagenomics ◽  
Microcosm Studies ◽  
Over Time

The global increase in marine transportation of dilbit (diluted bitumen) can increase the risk of spills, and the application of chemical dispersants remains a common response practice in spill events. To reliably evaluate dispersant effects on dilbit biodegradation over time, we set large-scale (1500 mL) microcosms without nutrients addition using low dilbit concentration (30 ppm). Shotgun metagenomics and metatranscriptomics were deployed to investigate microbial community responses to naturally and chemically dispersed dilbit. We found that the large-scale microcosms could produce more reproducible community trajectories than small-scale (250 mL) ones based on the 16S rRNA gene amplicon sequencing. In the early-stage large-scale microcosms, multiple genera were involved into the biodegradation of dilbit, while dispersant addition enriched primarily Alteromonas and competed for the utilization of dilbit, causing depressed degradation of aromatics. The metatranscriptomic based Metagenome Assembled Genomes (MAG) further elucidated early-stage microbial antioxidation mechanism, which showed dispersant addition triggered the increased expression of the antioxidation process genes of Alteromonas species. Differently, in the late stage, the microbial communities showed high diversity and richness and similar compositions and metabolic functions regardless of dispersant addition, indicating the biotransformation of remaining compounds can occur within the post-oil communities. These findings can guide future microcosm studies and the application of chemical dispersants for responding to a marine dilbit spill. Importance In this study, we employed microcosms to study the effects of marine dilbit spill and dispersant application on microbial community dynamics over time. We evaluated the impacts of microcosm scale and found that increasing the scale is beneficial for reducing community stochasticity, especially in the late stage of biodegradation. We observed that dispersant application suppressed aromatics biodegradation in the early stage (6 days) whereas exerting insignificant effects in the late stage (50 days), from both substances removal and metagenomic/metatranscriptomic perspectives. We further found that Alteromonas species are vital for the early-stage chemically dispersed oil biodegradation, and clarified their degradation and antioxidation mechanisms. The findings would help to better understand microcosm studies and microbial roles for biodegrading dilbit and chemically dispersed dilbit, and suggest that dispersant evaluation in large-scale systems and even through field trails would be more realistic after marine oil spill response.

scholarly journals Analyses of Land Cover Change Trajectories Leading to Tropical Forest Loss: Illustrated for the West Kutai and Mahakam Ulu Districts, East Kalimantan, Indonesia

Land ◽  
2018 ◽  
Vol 7 (3) ◽  
pp. 108 ◽  
Author(s):  
Carina van der Laan ◽  
Arif Budiman ◽  
Judith Verstegen ◽  
Stefan Dekker ◽  
Wiwin Effendy ◽  
...  
Keyword(s):  
Land Cover ◽  
Land Cover Change ◽  
Large Scale ◽  
Expert Knowledge ◽  
Small Scale ◽  
Forest Loss ◽  
The West ◽  
East Kalimantan ◽  
Open Forest ◽  
Over Time

In Indonesia, land cover change for agriculture and mining is threatening tropical forests, biodiversity and ecosystem services. However, land cover change is highly dynamic and complex and varies over time and space. In this study, we combined Landsat-based land cover (change) mapping, pixel-to-pixel cross tabulations and expert knowledge to analyze land cover change and forest loss in the West Kutai and Mahakam Ulu districts in East Kalimantan from 1990–2009. We found that about one-third of the study area changed in 1990–2009 and that the different types of land cover changes in the study area increased and involved more diverse and characteristic trajectories in 2000–2009, compared to 1990–2000. Degradation to more open forest types was dominant, and forest was mostly lost due to trajectories that involved deforestation to grasslands and shrubs (~17%), and to a lesser extent due to trajectories from forest to mining and agriculture (11%). Trajectories from forest to small-scale mixed cropland and smallholder rubber occurred more frequently than trajectories to large-scale oil palm or pulpwood plantations; however, the latter increased over time. About 11% of total land cover change involved multiple-step trajectories and thus “intermediate” land cover types. The combined trajectory analysis in this paper thus contributes to a more comprehensive analysis of land cover change and the drivers of forest loss, which is essential to improve future land cover projections and to support spatial planning.

scholarly journals Role of substorm-associated impulsive electric fields in the ring current development during storms

2005 ◽  
Vol 23 (2) ◽  
pp. 579-591 ◽  
Author(s):  
N. Yu. Ganushkina ◽  
T. I. Pulkkinen ◽  
T. Fritz
Keyword(s):  
Energy Density ◽  
Electric Field ◽  
Total Energy ◽  
Large Scale ◽  
Ring Current ◽  
High Energy ◽  
Time Dependent ◽  
Small Scale ◽  
Total Energy Density ◽  
Current Energy

Abstract. Particles with different energies produce varying contributions to the total ring current energy density as the storm progresses. Ring current energy densities and total ring current energies were obtained using particle data from the Polar CAMMICE/MICS instrument during several storms observed during the years 1996-1998. Four different energy ranges for particles are considered: total (1-200keV), low (1-20keV), medium (20-80keV) and high (80-200keV). Evolution of contributions from particles with different energy ranges to the total energy density of the ring current during all storm phases is followed. To model this evolution we trace protons with arbitrary pitch angles numerically in the drift approximation. Tracing is performed in the large-scale and small-scale stationary and time-dependent magnetic and electric field models. Small-scale time-dependent electric field is given by a Gaussian electric field pulse with an azimuthal field component propagating inward with a velocity dependent on radial distance. We model particle inward motion and energization by a series of electric field pulses representing substorm activations during storm events. We demonstrate that such fluctuating fields in the form of localized electromagnetic pulses can effectively energize the plasma sheet particles to higher energies (>80keV) and transport them inward to closed drift shells. The contribution from these high energy particles dominates the total ring current energy during storm recovery phase. We analyse the model contributions from particles with different energy ranges to the total energy density of the ring current during all storm phases. By comparing these results with observations we show that the formation of the ring current is a combination of large-scale convection and pulsed inward shift and consequent energization of the ring current particles.

scholarly journals Examination of a Stochastic and Deterministic Convection Parameterization in the COSMO Model

2015 ◽  
Vol 143 (10) ◽  
pp. 4088-4103 ◽  
Author(s):  
Kirstin Kober ◽  
Annette M. Foerster ◽  
George C. Craig
Keyword(s):  
Large Scale ◽  
Convective Precipitation ◽  
Small Scale ◽  
Synoptic Situation ◽  
Dependent Manner ◽  
Physical Processes ◽  
Verification Methods ◽  
Synoptic Forcing ◽  
Convection Parameterization

Abstract Stochastic parameterizations allow the representation of the small-scale variability of parameterized physical processes. This study investigates whether additional variability introduced by a stochastic convection parameterization leads to improvements in the precipitation forecasts. Forecasts are calculated with two different ensembles: one considering large-scale and convective variability with the stochastic Plant–Craig convection parameterization and one considering only large-scale variability with the standard Tiedtke convection parameterization. The forecast quality of both ensembles is evaluated in comparison with radar observations for two case studies with weak and strong synoptic forcing of convection and measured with neighborhood and probabilistic verification methods. The skill of the ensemble based on the Plant–Craig convection parameterization relative to the ensemble with the Tiedtke parameterization strongly depends on the synoptic situation in which convection occurs. In the weak forcing case, where the convective precipitation is highly intermittent, the ensemble based on the stochastic parameterization is superior, but the scheme produces too much small-scale variability in the strong forcing case. In the future, the degree of stochastic variability could be tuned, and these results show that parameters should be chosen in a regime-dependent manner.

scholarly journals Dose- and time-dependent changes in viability and IL-6, CXCL8 and CCL2 production by HaCaT-cells exposed to cobalt. Effects of high and low calcium growth conditions

PLoS ONE ◽  
2021 ◽  
Vol 16 (6) ◽  
pp. e0252159
Author(s):  
Maria Klasson ◽  
Magnus Lindberg ◽  
Eva Särndahl ◽  
Håkan Westberg ◽  
Ing-Liss Bryngelsson ◽  
...  
Keyword(s):  
Mixed Model ◽  
Cobalt Chloride ◽  
Linear Mixed Model ◽  
Time Dependent ◽  
Dependent Manner ◽  
Hacat Cells ◽  
Low Calcium ◽  
High Calcium ◽  
Ccl2 Production ◽  
Over Time

Background Sensitization requires exposure to an allergen with subsequent production of a “danger “signal. In the skin, keratinocytes are the main producers of these signals. Objective To compare dose- and time-effects of cobalt on the viability of and cytokine release from HaCaT cells cultured at low or high calcium. Method To model two separate states of differentiation of keratinocytes, HaCaT cells were cultured under low or high calcium conditions. HaCaT were exposed to different concentrations of cobalt chloride (10 μm to 5 mM) over time (30 minutes– 48 hours). Cell viability was measured with the Cell-Titer Blue Viability assay. Cytokine production was measured using a bead-based immunoassay and flow cytometry. Gene expression was quantified using qPCR. Data was analyzed by ANOVA and linear mixed model. Results Viability of the cells was dose- and time-dependent. A linear mixed statistical model showed that cobalt exposure induces increase in IL-6, CXCL8 and CCL2 production over time and whereas increase of IL-6 and a decrease of CCL2 was associated with increasing cobalt chloride concentrations. When comparing the cells incubated under high and low calcium conditions, the more differentiated cells in the high concentration were found to exert a stronger response in terms of IL-6 release. Conclusions Our data suggest that cobalt chloride triggered an alarm system in HaCaT cells, and proinflammatory cytokines/chemokines were secreted in a dose- and time-dependent manner. When high and low calcium incubations were compared, the difference was seen only for IL-6. These findings indicate that the effect of cobalt chloride on cell toxicity occurs throughout the living epidermis.

scholarly journals Localise It

2021 ◽  
Author(s):  
◽  
Anna Sobye
Keyword(s):  
Landscape Architecture ◽  
Large Scale ◽  
Local Community ◽  
Central City ◽  
Community Gardens ◽  
Small Scale ◽  
Fault Line ◽  
Community Gardening ◽  
Physical Form ◽  
Civil Defence

<p>Wellington is located on a fault line which will inevitably, one day be impacted by a big earthquake. Due to where this fault line geographically sits, the central city and southern suburbs may be cut off from the rest of the region, effectively making these areas an ‘island’. This issue has absorbed a lot of attention, in particular at a large scale by many different fields: civil engineering, architecture, infrastructure planning & design, policymaking.  Due to heightened awareness, and evolved school of practice, contemporary landscape architects deal with post-disaster design – Christchurch, NZ has seen this. A number of landscape architects work with nature, following increased application of ecological urbanism, and natural systems thinking, most notably at larger scales.  To create parks that are designed to flood, or implement projects to protect shorelines. A form of resilience less often considered is how design for the small scale - people’s 1:1 relationship with their immediate context in exterior space - can be influential in forming a resilient response to the catastrophe of a major earthquake. This thesis intends to provide a response to address the shift of scales, as a paradigm for preparation and recovery.  After a large-scale earthquake, state and civic policies and agencies may or subsequentially not go into action. The most important thinking and acting will be what happens in the minds, and the immediate needs, of each and every person; and how they act communally. This is considered in general social terms in state and civic education programmes of civil defence, for example, but much less considered in how the physical design of the actual spaces we inhabit day-to-day can educate us to be mentally prepared to help each other survive a catastrophe. Specifically, the identification of design of typologies can provide these educative functions.  Typology inherently a physical form or manipulation of a generic and substantial prototype applicable in contexts is something that exists in the mind. Working with the physical and social appearance and experience of typologies can also/will change people’s minds.  Socially, and economically driven, the community-building power of community gardening is well-proven and documented, and a noticeably large part of contemporary landscape architecture. The designs of this thesis will focus on community gardening specifically to form typologies of resilience preparation and response to disaster. The foundation will remain at the small scale of the local community. The specific question this thesis poses: Can we design local typologies in landscape architecture to integrate community gardens, with public space by preparing for and acting as recovery from a disaster?</p>

Posttranscriptional control of aquaporin-2 abundance by vasopressin in renal collecting duct principal cells

2006 ◽  
Vol 290 (1) ◽  
pp. F177-F187 ◽  
Author(s):  
Udo Hasler ◽  
Søren Nielsen ◽  
Eric Féraille ◽  
Pierre-Yves Martin
Keyword(s):  
Protein Content ◽  
Collecting Duct ◽  
Time Dependent ◽  
Protein Abundance ◽  
Dependent Manner ◽  
Transient Effects ◽  
Expression Levels ◽  
Principal Cells ◽  
Aquaporin 2 ◽  
Over Time

Prevailing expression levels of aquaporin-2 (AQP2) mRNA play a major role in regulating AQP2 protein abundance. Here, we investigated whether AQP2 protein abundance is regulated at a posttranscriptional level as well. The expression levels of both AQP2 mRNA and protein increase in response to arginine vasopressin (AVP) in a concentration- and time-dependent manner in cultured immortalized mouse collecting duct principal cells (mpkCCDcl4 cells). AVP washout from the medium of AVP-pretreated cells revealed that AQP2 mRNA expression progressively decreased over time, whereas AQP2 protein abundance first increased immediately after AVP washout and then gradually decreased over time. Inversely, increasing AVP concentration led to a time-dependent increase of AQP2 mRNA, whereas AQP2 protein abundance first decreased immediately after AVP supplementation and then gradually increased over time. These transient effects arose from altered V2-receptor activity because they could be abolished by SR-121463B, a specific V2-receptor antagonist. Although cycloheximide administration had no effect on transient alterations of AQP2 protein content, these effects were attenuated by administration of chloroquine, a lysosomal inhibitor, or lactacystin, a proteasomal inhibitor. Short-term inhibition of PKA activity significantly increased AQP2 protein abundance and blunted the transient alterations of AQP2 protein content induced by AVP washout and supplementation. In addition, phosphorylated AQP2 abundance increased immediately after AVP supplementation. These results indicate that in response to AVP AQP2 protein abundance in collecting duct principal cells is principally influenced by AQP2 mRNA content but is additionally regulated by PKA-dependent negative feedback acting on AQP2 protein degradation.

scholarly journals Symbolic Chiasm in Arvo Pärt’s Passio (1982)

2011 ◽  
Vol 21 (1) ◽  
pp. 45-59
Author(s):  
Mark Vuorinen
Keyword(s):  
Large Scale ◽  
Small Scale ◽  
Biblical Text ◽  
Passion Narrative ◽  
Macroscopic Level ◽  
The Cross ◽  
To Come ◽  
Musical Communication ◽  
Arvo Part ◽  
Over Time

Passio, is Arvo Pärt’s first large scale vocal-instrumental work in the tintinnabuli style and remains today one of his most significant compositions. In this setting of the Passion text according to St. John, Pärt codifies procedures of tintinnabuli that will remain his principle means of musical communication for years to come while implying a very important perspective of Johannine theology. His compositional design utilizes both small-scale and large-scale chiastic constructions and gives prominence to John’s observance in Chapter 18, verse 4, that Christ knows all that will occur in the events leading to his crucifixion. Seen in this light, the Passion narrative unfolds according to a pre-ordained plan; it is this subtle perspective of the Gospel that Arvo Pärt reveals musically in his Passio. This paper approaches a musical analysis of Passio in relation to John’s perspective that Christ knew all that was to follow. It illustrates that virtually every note is linked in some way to Pärt’s musical pilgrimage to the cross. With a microscopic lens, the analysis connects Pärt’s use of melody, texture, inversion and tintinnabuli to a poignant marriage of music and the biblical text. And on a macroscopic level, it is shown that musical events unfold over time to reveal the inevitability of the crucifixion. It is revealed that within the work’s tonal centres, large-scale textural procedures, pedal points and the music of the Exordium and Conclusio the path to the cross is present from beginning to end. In this way, the listener is taken through the narrative only to realize afterward that the Gospel’s outcome was present from beginning to end.

scholarly journals Grading Gradients: Evaluating Evidence for Time-dependent Memory Reorganization in Experimental Animals

2009 ◽  
Vol 2 ◽  
pp. JEN.S2391 ◽  
Author(s):  
Katherine G. Akers ◽  
Paul W. Frankland
Keyword(s):  
Synaptic Plasticity ◽  
Animal Models ◽  
Retrograde Amnesia ◽  
Time Dependent ◽  
Hippocampal Damage ◽  
Dependent Manner ◽  
Experimental Animals ◽  
Hippocampal Lesions ◽  
Experimental Approaches ◽  
Over Time

In humans, hippocampal damage typically produces temporally graded retrograde amnesia, with relative sparing of remote memories compared to recent memories. This observation led to the idea that as memories age, they are reorganized in a time-dependent manner. Here, we evaluate evidence for time-dependent memory reorganization in animal models. We conclude that, although hippocampal lesions may not always produce temporal gradients under all conditions, studies using alternate experimental approaches consistently support the idea that memories reorganize over time—becoming less dependent on the hippocampus and more dependent on a cortical network. We further speculate on the processes that drive memory reorganization such as sleep, memory reactivation, synaptic plasticity, and neurogenesis.

Experimental Study and Model Calculations of Metal Combustion in Al/Ap Underwater Explosives

1992 ◽  
Vol 296 ◽  
Author(s):  
Philip J. Miller ◽  
Raafat H. Guirguis
Keyword(s):  
Equation Of State ◽  
Large Scale ◽  
Time Frame ◽  
Time Dependent ◽  
Small Scale ◽  
Detonation Products ◽  
Metal Combustion ◽  
Model Calculations ◽  
Slow Expansion ◽  
Gas Expansion

AbstractA small-scale laboratory experiment in which the detonation products are confined was designed such as to yield for small charges (as little as 1/2 gram) gas expansion rates comparable to those due to the underwater detonation of large-scale charges. The resulting slow expansion allows the aluminum and the other non-ideal components typically used in underwater explosives to react to completion within the time frame of the experiment. Both ideal and non-ideal aluminized explosives were tested. The traditional Jones-Wilkins-Lee (JWL) equation of state reproduced the measurements in the case of the ideal explosives. An extended JWL equation of state in which the time-dependent late energy release is introduced was adjusted until it reproduced the measurements of the non-ideal explosive tested. This derived time-dependent equation of state also reproduced the data of large-scale cylinder tests and underwater detonations using the same non-ideal explosive.

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