scholarly journals Stochastic Effects in Retrotransposon Dynamics Revealed by Modeling under Competition for Cellular Resources

Life ◽  
2021 ◽  
Vol 11 (11) ◽  
pp. 1209
Author(s):  
Sergey Pavlov ◽  
Vitaly V. Gursky ◽  
Maria Samsonova ◽  
Alexander Kanapin ◽  
Anastasia Samsonova
Keyword(s):  
Stochastic Effects ◽  
Alu Elements ◽  
Predator Prey ◽  
Available Energy ◽  
A Cell ◽  
Multiple Cell ◽  
Competition Process ◽  
Copy And Paste ◽  
Transposon Activity ◽  
The Impact

Transposons are genomic elements that can relocate within a host genome using a ‘cut’- or ‘copy-and-paste’ mechanism. They make up a significant part of many genomes, serve as a driving force for genome evolution, and are linked with Mendelian diseases and cancers. Interactions between two specific retrotransposon types, autonomous (e.g., LINE1/L1) and nonautonomous (e.g., Alu), may lead to fluctuations in the number of these transposons in the genome over multiple cell generations. We developed and examined a simple model of retrotransposon dynamics under conditions where transposon replication machinery competed for cellular resources: namely, free ribosomes and available energy (i.e., ATP molecules). Such competition is likely to occur in stress conditions that a malfunctioning cell may experience as a result of a malignant transformation. The modeling revealed that the number of actively replicating LINE1 and Alu elements in a cell decreases with the increasing competition for resources; however, stochastic effects interfere with this simple trend. We stochastically simulated the transposon dynamics in a cell population and showed that the population splits into pools with drastically different transposon behaviors. The early extinction of active Alu elements resulted in a larger number of LINE1 copies occurring in the first pool, as there was no competition between the two types of transposons in this pool. In the other pool, the competition process remained and the number of L1 copies was kept small. As the level of available resources reached a critical value, both types of dynamics demonstrated an increase in noise levels, and both the period and the amplitude of predator–prey oscillations rose in one of the cell pools. We hypothesized that the presented dynamical effects associated with the impact of the competition for cellular resources inflicted on the dynamics of retrotransposable elements could be used as a characteristic feature to assess a cell state, or to control the transposon activity.

Numerical Simulation of Heat Transfer Mechanisms in Spray Cooling

2010 ◽  
Author(s):  
Eelco Gehring ◽  
Mario F. Trujillo
Keyword(s):  
Heat Transfer ◽  
Heated Surface ◽  
Spray Cooling ◽  
Impingement Zone ◽  
Ongoing Work ◽  
Efficient Suppression ◽  
A Cell ◽  
Cooling Behavior ◽  
Free Surface Capturing ◽  
The Impact

A primary mechanism of heat transfer in spray cooling is the impingement of numerous droplets onto a heated surface. This mechanism is isolated in the present and ongoing work by numerically simulating the impact of a single train of FC-72 droplets employing an implicit free surface capturing methodology. The droplet frequency and velocity ranges from 2000–4000 Hz, and 0.5–2 m/s, respectively, with a fixed drop size of 239 μm. This gives a corresponding Weber and Reynolds range of 10–170 and 330–1300, respectively. Results show that the impingement zone is largely free of phase change effects due to the efficient suppression of the local temperature field well below the saturated value. Due in part to the relatively high value of the Prandtl number and the compression of the boundary layer from the impingement flow, a cell size on the order of 1 μm is necessary to adequately capture the heat transfer dynamics. It is shown that the cooling behavior increases in relation to increasing frequency and impact velocity, but is most sensitive to velocity. In fact, for sufficiently low velocities the calculations show that the momentum imparted on the film is insufficient to maintain a near stationary liquid crown. The consequence is a noticeable penalty on the cooling behavior.

An Investigation into the Impact of Software Licenses on Copy-and-paste Reuse among OSS Projects

2011 ◽  
Author(s):  
Yu Kashima ◽  
Yasuhiro Hayase ◽  
Norihiro Yoshida ◽  
Yuki Manabe ◽  
Katsuro Inoue
Keyword(s):  
Software Licenses ◽  
Copy And Paste ◽  
The Impact

scholarly journals Analytical Model for Estimating the Impact of Changing the Nominal Power Parameter in LTE

2018 ◽  
Vol 2018 ◽  
pp. 1-7
Author(s):  
A. B. Vallejo-Mora ◽  
M. Toril ◽  
S. Luna-Ramírez ◽  
M. Regueira ◽  
S. Pedraza
Keyword(s):  
Analytical Model ◽  
Mobile Networks ◽  
Radio Resource Management ◽  
Estimation Accuracy ◽  
Model Assessment ◽  
Power Parameter ◽  
Management Procedure ◽  
Proposed Model ◽  
A Cell ◽  
The Impact

UpLink Power Control (ULPC) is a key radio resource management procedure in mobile networks. In this paper, an analytical model for estimating the impact of increasing the nominal power parameter in the ULPC algorithm for the Physical Uplink Shared CHannel (PUSCH) in Long Term Evolution (LTE) is presented. The aim of the model is to predict the effect of changing the nominal power parameter in a cell on the interference and Signal-to-Interference-plus-Noise Ratio (SINR) of that cell and its neighbors from network statistics. Model assessment is carried out by means of a field trial where the nominal power parameter is increased in some cells of a live LTE network. Results show that the proposed model achieves reasonable estimation accuracy, provided uplink traffic does not change significantly.

scholarly journals Beyond genetics – The emerging role of epigenetics and its clinical aspects

2012 ◽  
Vol 153 (6) ◽  
pp. 214-221 ◽  
Author(s):  
Veronika Urbán S. ◽  
Elizabeta Benevolenskaya ◽  
Judit Kiss ◽  
Bernadett Sági ◽  
Beáta Hegyi ◽  
...  
Keyword(s):  
Decisive Role ◽  
Clinical Aspects ◽  
Dynamic Complexity ◽  
Spatial Changes ◽  
Future Drug ◽  
A Cell ◽  
Multiple Cell ◽  
Induced Changes ◽  
Cell Phenotypes ◽  
Diversity Of Life

Analysis of genomic sequences has clearly shown that the genomic differences among species do not explain the diversity of life. The genetic code itself serves as only a part of the dynamic complexity that results in the temporal and spatial changes in cell phenotypes during development. It has been concluded that the phenotype of a cell and of the organism as a whole is more influenced by environmentally-induced changes in gene activity than had been previously thought. The emerging field of epigenetics focuses on molecular marks on chromatin; called the epigenome, which serve as transmitters between the genome and the environment. These changes not only persist through multiple cell division cycles, but may also endure for multiple generations. Irregular alterations of the epigenome; called epimutations, may have a decisive role in the etiology of human pathologies such as malignancies and other complex human diseases. Epigenetics can provide the missing link between genetics, disease and the environment. Therefore, this field may have an increasing impact on future drug design and serve as a basis for new therapeutic/preventative approaches. Orv. Hetil., 2012, 153, 214–221.

Analysis for the Effect of Inverter Ripple Current on Fuel Cell Operating Condition

2001 ◽  
Author(s):  
Randall S. Gemmen
Keyword(s):  
Boundary Condition ◽  
Fuel Cell ◽  
Mass Transport ◽  
Transient Behavior ◽  
Mechanical State ◽  
Dimensional Model ◽  
One Dimensional ◽  
Fuel Cell Stack ◽  
A Cell ◽  
The Impact

Abstract The effect of inverter ripple current on fuel cell stack performance and stack lifetime remains uncertain. This paper provides a first attempt to examine the impact of inverter load dynamics on the fuel cell. Since reactant utilization is known to impact the mechanical state of a fuel cell, it is suggested that the varying reactant conditions surrounding the cell govern, at least in part, the lifetime of the cells. This paper investigates these conditions through the use of a dynamic model for the bulk conditions within the stack, as well as a one-dimensional model for the detailed mass transport occurring within the electrode of a cell. These two independent modeling approaches help to verify their respective numerical procedures. In this work, the inverter load is imposed as a boundary condition to the models. Results show the transient behavior of the reactant concentrations within the stack, and of the mass diffusion within the electrode under inverter loads with frequencies between 30 Hz and 1250 Hz.

scholarly journals The impact of large terrestrial carnivores on Pleistocene ecosystems

2015 ◽  
Vol 113 (4) ◽  
pp. 862-867 ◽  
Author(s):  
Blaire Van Valkenburgh ◽  
Matthew W. Hayward ◽  
William J. Ripple ◽  
Carlo Meloro ◽  
V. Louise Roth
Keyword(s):  
Prey Size ◽  
Habitat Degradation ◽  
Terrestrial Ecosystems ◽  
Growth Data ◽  
Predator Prey ◽  
Body Sizes ◽  
Population Sizes ◽  
Potential Impact ◽  
The Impact ◽  
Ground Sloths

Large mammalian terrestrial herbivores, such as elephants, have dramatic effects on the ecosystems they inhabit and at high population densities their environmental impacts can be devastating. Pleistocene terrestrial ecosystems included a much greater diversity of megaherbivores (e.g., mammoths, mastodons, giant ground sloths) and thus a greater potential for widespread habitat degradation if population sizes were not limited. Nevertheless, based on modern observations, it is generally believed that populations of megaherbivores (>800 kg) are largely immune to the effects of predation and this perception has been extended into the Pleistocene. However, as shown here, the species richness of big carnivores was greater in the Pleistocene and many of them were significantly larger than their modern counterparts. Fossil evidence suggests that interspecific competition among carnivores was relatively intense and reveals that some individuals specialized in consuming megaherbivores. To estimate the potential impact of Pleistocene large carnivores, we use both historic and modern data on predator–prey body mass relationships to predict size ranges of their typical and maximum prey when hunting as individuals and in groups. These prey size ranges are then compared with estimates of juvenile and subadult proboscidean body sizes derived from extant elephant growth data. Young proboscideans at their most vulnerable age fall within the predicted prey size ranges of many of the Pleistocene carnivores. Predation on juveniles can have a greater impact on megaherbivores because of their long interbirth intervals, and consequently, we argue that Pleistocene carnivores had the capacity to, and likely did, limit megaherbivore population sizes.

scholarly journals Insectivorous bats are less active near freeways

PLoS ONE ◽  
2021 ◽  
Vol 16 (3) ◽  
pp. e0247400
Author(s):  
Manisha Bhardwaj ◽  
Kylie Soanes ◽  
José J. Lahoz-Monfort ◽  
Linda F. Lumsden ◽  
Rodney van der Ree
Keyword(s):  
Agricultural Landscapes ◽  
Individual Species ◽  
Insectivorous Bats ◽  
Predator Prey ◽  
The Road ◽  
Environmental Impact Assessments ◽  
Wildlife Populations ◽  
Roadside Verges ◽  
The Impact ◽  
Plant Pollinator

Traffic disturbances (i.e. pollution, light, noise, and vibrations) often extend into the area surrounding a road creating a ‘road-effect zone’. Habitat within the road-effect zone is degraded or, in severe cases, completely unsuitable for wildlife, resulting in indirect habitat loss. This can have a disproportionate impact on wildlife in highly modified landscapes, where remaining habitat is scarce or occurs predominantly along roadside reserves. In this study, we investigated the road-effect zone for insectivorous bats in highly cleared agricultural landscapes by quantifying the change in call activity with proximity to three major freeways. The activity of seven out of 10 species of bat significantly decreased with proximity to the freeway. We defined the road-effect zone to be the proximity at which call activity declined by at least 20% relative to the maximum detected activity. The overall road-effect zone for bats in this region was 307 m, varying between 123 and 890 m for individual species. Given that this road-effect zone exceeds the typical width of the roadside verges (<50 m), it is possible that much of the vegetation adjacent to freeways in this and similar landscapes provides low-quality habitat for bats. Without accounting for the road-effect zone, the amount of habitat lost or degraded due to roads is underestimated, potentially resulting in the loss of wildlife, ecosystem services and key ecosystem processes (e.g. predator-prey or plant-pollinator interactions) from the landscape. We suggest all future environmental impact assessments include quantifying the road-effect zone for sensitive wildlife, in order to best plan and mitigate the impact of roads on the environment. Mitigating the effects of new and existing roads on wildlife is essential to ensure enough high-quality habitat persists to maintain wildlife populations.

scholarly journals Discovery of a Novel Bat Gammaherpesvirus

mSphere ◽  
2016 ◽  
Vol 1 (1) ◽  
Author(s):  
Kurtis M. Host ◽  
Blossom Damania
Keyword(s):  
Phylogenetic Analysis ◽  
Recent Article ◽  
Emerging Infectious Diseases ◽  
Human Origin ◽  
Sequencing Technology ◽  
Next Generation Sequencing Technology ◽  
A Cell ◽  
Multiple Cell ◽  
Genomic Map ◽  
Generation Sequencing

ABSTRACT Zoonosis is the leading cause of emerging infectious diseases. In a recent article, R. S. Shabman et al. (mSphere 1[1]:e00070-15, 2016, http://dx.doi.org/10.1128/mSphere.00070-15 ) report the identification of a novel gammaherpesvirus in a cell line derived from the microbat Myotis velifer incautus. This is the first report on a replicating, infectious gammaherpesvirus from bats. The new virus is named bat gammaherpesvirus 8 (BGHV8), also known as Myotis gammaherpesvirus 8, and is able to infect multiple cell lines, including those of human origin. Using next-generation sequencing technology, the authors constructed a full-length annotated genomic map of BGHV8. Phylogenetic analysis of several genes from BGHV8 revealed similarity to several mammalian gammaherpesviruses, including Kaposi’s sarcoma-associated herpesvirus (KSHV).

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