scholarly journals A model explaining mRNA level fluctuations based on activity demands and RNA age

2021 ◽  
Vol 17 (7) ◽  
pp. e1009188
Author(s):  
Zhongneng Xu ◽  
Shuichi Asakawa

Cellular RNA levels typically fluctuate and are influenced by different transcription rates and RNA degradation rates. However, the understanding of the fundamental relationships between RNA abundance, environmental stimuli, RNA activities, and RNA age distributions is incomplete. Furthermore, the rates of RNA degradation and transcription are difficult to measure in transcriptomic experiments in living organisms, especially in studies involving humans. A model based on activity demands and RNA age was developed to explore the mechanisms of RNA level fluctuations. Using single-cell time-series gene expression experimental data, we assessed the transcription rates, RNA degradation rates, RNA life spans, RNA demand, accumulated transcription levels, and accumulated RNA degradation levels. This model could also predict RNA levels under simulation backgrounds, such as stimuli that induce regular oscillations in RNA abundance, stable RNA levels over time that result from long-term shortage of total RNA activity or from uncontrollable transcription, and relationships between RNA/protein levels and metabolic rates. This information contributes to existing knowledge.

2020 ◽  
Author(s):  
Zhongneng Xu ◽  
Shuichi Asakawa

ABSTRACTCellular RNA levels are usually fluctuated and are affected by many factors. However, knowledge on the fundamental relationships between RNA abundance, environmental stimuli, and RNA activities is lacking, and the effects of RNA age on RNA levels remain unknown. A model based on activity demands and RNA age was developed to explore the mechanisms of RNA level fluctuations. With single cell time-series gene expression experimental data, we could assess transcription rates, RNA degradation rates, RNA life spans, RNA demands, accumulated transcription amounts, and accumulated RNA degradation amounts by this model. The model could also predict RNA levels under simulation backgrounds, such as stimuli leading to regular oscillations in RNA abundance, stable RNA levels over time being resulted from the long shortage of total RNA activity or uncontrollable transcription, and relationship between RNA levels and protein levels. Given explaining partly mechanisms of some RNA level fluctuations by the present model, further proves and suitable applications are expected.


2019 ◽  
Author(s):  
Maria Tiana ◽  
Clara Galiana ◽  
Miguel Ángel Fernández-Moreno ◽  
Benilde Jimenez ◽  
Luis del Peso

ABSTRACTCells adapt to environmental changes, including fluctuations in oxygen levels, through the induction of specific gene expression programs. However, most transcriptomic studies do not distinguish the relative contribution of transcription, RNA processing and RNA degradation processes to cellular homeostasis. Here we used metabolic labeling followed by massive parallel sequencing of newly transcribed and preexisting RNA fractions to simultaneously analyze RNA synthesis and decay in primary endothelial cells exposed to low oxygen tension. We found that the changes in transcription rates induced by hypoxia are the major determinant of RNA levels. However, degradation rates also had a significant contribution, accounting for 24% of the observed variability in total mRNA. In addition, our results indicated that hypoxia led to a reduction of the overall mRNA stability from a median half-life in normoxia of 8.7 hours, to 5.7 hours in hypoxia. Analysis of RNA content per cell confirmed a decrease of both mRNA and total RNA in hypoxic samples and that this effect was mimicked by forced activation of the Hypoxia Inducible Factor pathway and prevented by its interference. In summary, our study provides a quantitative analysis of the contribution of RNA synthesis and stability to the transcriptional response to hypoxia and uncovers an unexpected effect on the latter.


2018 ◽  
Vol 9 (43) ◽  
pp. 8271-8281 ◽  
Author(s):  
Guillaume Longatte ◽  
Adnan Sayegh ◽  
Jérôme Delacotte ◽  
Fabrice Rappaport ◽  
Francis-André Wollman ◽  
...  

Quinones are dual compounds able to extract photosynthetic electrons from living organisms but with long-term poisoning effects.


Water Policy ◽  
2005 ◽  
Vol 7 (5) ◽  
pp. 469-483
Author(s):  
Tishya Chatterjee

In conditions of severe water-pollution and dormant community acceptance of accumulating environmental damage, the regulator's role goes beyond pollution prevention and more towards remediation and solutions based on the community's long-term expectations of economic benefits from clean water. This paper suggests a method to enable these benefits to become perceptible progressively, through participatory clean-up operations, supported by staggered pollution charges. It analyses the relevant literature on pollution prevention and applies a cost-based “willingness to pay” model, using primary basin-level data of total marginal costs. It develops a replicable demand-side approach imposing charge-standard targets over time in urban-industrial basins of developing countries.


Author(s):  
Halil Kaya ◽  
Gaurango Banerjee

The paper examines the Sarbanes-Oxley (2002) Acts immediate impact on board composition and characteristics as well as possible reversals in its impact over time. Effects on directors age and tenure are analyzed over the 2001-06 sample period. Female participation in corporate boards is also studied in the pre-SOX and post-SOX periods. The dual roles of directors in being a member of the board as well as serving as either CEO, CFO, Chairman, Co-Chair, Founder, or Lead Director of their respective companies is also examined. We observe a short-term impact of SOX on board compositions due to changes seen in board characteristics between 2001 (pre-SOX), and 2003-05 short-term period (post-SOX). Also, we observe a reversal of board characteristics in 2006 to pre-SOX levels implying that the effects of SOX on board composition were short-lived, and needs to be monitored over time to ensure adherence to corporate accountability guidelines over the long-term.


2021 ◽  
pp. 194016122110252
Author(s):  
Sebastián Valenzuela ◽  
Daniel Halpern ◽  
Felipe Araneda

Despite widespread concern, research on the consequences of misinformation on people's attitudes is surprisingly scant. To fill in this gap, the current study examines the long-term relationship between misinformation and trust in the news media. Based on the reinforcing spirals model, we analyzed data from a three-wave panel survey collected in Chile between 2017 and 2019. We found a weak, over-time relationship between misinformation and media skepticism. Specifically, initial beliefs on factually dubious information were negatively correlated with subsequent levels of trust in the news media. Lower trust in the media, in turn, was related over time to higher levels of misinformation. However, we found no evidence of a reverse, parallel process where media trust shielded users against misinformation, further reinforcing trust in the news media. The lack of evidence of a downward spiral suggests that the corrosive effects of misinformation on attitudes toward the news media are less serious than originally suggested. We close with a discussion of directions for future research.


2021 ◽  
pp. 089020702110173
Author(s):  
Nadin Beckmann ◽  
Damian P Birney ◽  
Amirali Minbashian ◽  
Jens F Beckmann

The study aimed to investigate the status of within-person state variability in neuroticism and conscientiousness as individual differences constructs by exploring their (a) temporal stability, (b) cross-context consistency, (c) empirical links to selected antecedents, and (d) empirical links to longer term trait variability. Employing a sample of professionals ( N = 346) from Australian organisations, personality state data together with situation appraisals were collected using experience sampling methodology in field and repeatedly in lab-like settings. Data on personality traits, cognitive ability, and motivational mindsets were collected at baseline and after two years. Contingent (situation contingencies) and non-contingent (relative SD) state variability indices were relatively stable over time and across contexts. Only a small number of predictive effects of state variability were observed, and these differed across contexts. Cognitive ability appeared to be associated with state variability under lab-like conditions. There was limited evidence of links between short-term state and long-term trait variability, except for a small effect for neuroticism. Some evidence of positive manifold was found for non-contingent variability. Systematic efforts are required to further elucidate the complex pattern of results regarding the antecedents, correlates and outcomes of individual differences in state variability.


2021 ◽  
Vol 13 (11) ◽  
pp. 6313
Author(s):  
Ramona Ciolac ◽  
Tiberiu Iancu ◽  
Ioan Brad ◽  
Tabita Adamov ◽  
Nicoleta Mateoc-Sîrb

The agritourism activity can be a characteristic reality of the present, considering rural area’s sustainability, being at the same time a business reality for rural entrepreneurs and a “must have” for rural communities that have tourism potential. It is a form of tourism, through which the tourist can receive a qualitative product at a reasonable price, but also a field that can ensure sustainable development over time, being at the same time environmentally friendly. The purpose of this scientific paper is to identify the aspects that make agritourism “a possible business reality of the moment”, for Romanian rural area’s sustainability. We take into account the following areas: Bran-Moieciu area—considered “the oldest” in terms of agritourism experience, and Apuseni Mountains area, with a great inclination and potential for this activity. The study conducted for these two areas is focused on several aspects: the degree of involvement in agritourism activities, considering the number of years and managerial experience, the analysis of the types of activities/experiences offered by agritourism structures, the identification of the main reasons/motivations for the orientation towards agritourism and the manner in which this field is perceived. Aspects related to the marketing-finance part of the agritourism business are also taken into account: customers, distribution channels, financial sources, shortcomings observed by agritourism business owners and possible action directions so as to improve the activity/agritourism product. Agritourism may be “a possible business reality of the moment” for the studied areas and not only, but in the future, the entrepreneur/farmer must be constantly updated because of the changing situations that appear on the market, be able to make sustainable decisions for his/her own business, which in the future will ensure its viability and obviously its long-term profitability and development, and in the same time rural area’s sustainability.


2020 ◽  
Vol 31 (3) ◽  
pp. 453-460 ◽  
Author(s):  
Christina Halperin ◽  
Carolyn Freiwald ◽  
Gyles Iannone

AbstractThe Maya area has long been characterized as a mosaic of polities large and small, with cultural connections, linguistic dialects, ethnicities, and economic networks that shifted, expanded, and contracted over time. In this paper, we examine different ways of constructing boundaries. From physical demarcations in the landscape to habitual practices of interaction and affiliation, the lines that tied and divided were both unstable and multiple. We draw on definitions and theories from anthropology, history, and geography to review the concepts of borders, frontiers, and boundaries and their implications for the Maya area over the long term.


Water ◽  
2021 ◽  
Vol 13 (9) ◽  
pp. 1324
Author(s):  
David Revell ◽  
Phil King ◽  
Jeff Giliam ◽  
Juliano Calil ◽  
Sarah Jenkins ◽  
...  

Sea level rise increases community risks from erosion, wave flooding, and tides. Current management typically protects existing development and infrastructure with coastal armoring. These practices ignore long-term impacts to public trust coastal recreation and natural ecosystems. This adaptation framework models physical responses to the public beach and private upland for each adaptation strategy over time, linking physical changes in widths to damages, economic costs, and benefits from beach recreation and nature using low-lying Imperial Beach, California, as a case study. Available coastal hazard models identified community vulnerabilities, and local risk communication engagement prioritized five adaptation approaches—armoring, nourishment, living shorelines, groins, and managed retreat. This framework innovates using replacement cost as a proxy for ecosystem services normally not valued and examines a managed retreat policy approach using a public buyout and rent-back option. Specific methods and economic values used in the analysis need more research and innovation, but the framework provides a scalable methodology to guide coastal adaptation planning everywhere. Case study results suggest that coastal armoring provides the least public benefits over time. Living shoreline approaches show greater public benefits, while managed retreat, implemented sooner, provides the best long-term adaptation strategy to protect community identity and public trust resources.


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