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

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 r...

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Autores principales:	Zhongneng Xu, Shuichi Asakawa
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2021
Materias:	Biology (General) QH301-705.5
Acceso en línea:	https://doaj.org/article/c9cb1a2817914924884c78e9c2a4fba3
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id	oai:doaj.org-article:c9cb1a2817914924884c78e9c2a4fba3
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spelling	oai:doaj.org-article:c9cb1a2817914924884c78e9c2a4fba32021-12-02T19:57:23ZA model explaining mRNA level fluctuations based on activity demands and RNA age.1553-734X1553-735810.1371/journal.pcbi.1009188https://doaj.org/article/c9cb1a2817914924884c78e9c2a4fba32021-07-01T00:00:00Zhttps://doi.org/10.1371/journal.pcbi.1009188https://doaj.org/toc/1553-734Xhttps://doaj.org/toc/1553-7358Cellular 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.Zhongneng XuShuichi AsakawaPublic Library of Science (PLoS)articleBiology (General)QH301-705.5ENPLoS Computational Biology, Vol 17, Iss 7, p e1009188 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Biology (General) QH301-705.5
spellingShingle	Biology (General) QH301-705.5 Zhongneng Xu Shuichi Asakawa A model explaining mRNA level fluctuations based on activity demands and RNA age.
description	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.
format	article
author	Zhongneng Xu Shuichi Asakawa
author_facet	Zhongneng Xu Shuichi Asakawa
author_sort	Zhongneng Xu
title	A model explaining mRNA level fluctuations based on activity demands and RNA age.
title_short	A model explaining mRNA level fluctuations based on activity demands and RNA age.
title_full	A model explaining mRNA level fluctuations based on activity demands and RNA age.
title_fullStr	A model explaining mRNA level fluctuations based on activity demands and RNA age.
title_full_unstemmed	A model explaining mRNA level fluctuations based on activity demands and RNA age.
title_sort	model explaining mrna level fluctuations based on activity demands and rna age.
publisher	Public Library of Science (PLoS)
publishDate	2021
url	https://doaj.org/article/c9cb1a2817914924884c78e9c2a4fba3
work_keys_str_mv	AT zhongnengxu amodelexplainingmrnalevelfluctuationsbasedonactivitydemandsandrnaage AT shuichiasakawa amodelexplainingmrnalevelfluctuationsbasedonactivitydemandsandrnaage AT zhongnengxu modelexplainingmrnalevelfluctuationsbasedonactivitydemandsandrnaage AT shuichiasakawa modelexplainingmrnalevelfluctuationsbasedonactivitydemandsandrnaage
_version_	1718375868430024704

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

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