Frequency Domain Analysis of Fluctuations of mRNA and Protein Copy Numbers within a Cell Lineage: Theory and Experimental Validation

The stochasticity of gene expression is manifested in the fluctuations of messenger ribonucleic acid and protein copy numbers within a cell lineage over time. While data of this type can be obtained for many generations, most mathematical models are unsuitable to interpret such data since they assum...

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Autores principales:	Chen Jia, Ramon Grima
Formato:	article
Lenguaje:	EN
Publicado:	American Physical Society 2021
Materias:	Physics QC1-999
Acceso en línea:	https://doaj.org/article/60f0ef6b28b34bc5b76b2422827e9f90
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spelling	oai:doaj.org-article:60f0ef6b28b34bc5b76b2422827e9f902021-12-02T14:35:47ZFrequency Domain Analysis of Fluctuations of mRNA and Protein Copy Numbers within a Cell Lineage: Theory and Experimental Validation10.1103/PhysRevX.11.0210322160-3308https://doaj.org/article/60f0ef6b28b34bc5b76b2422827e9f902021-05-01T00:00:00Zhttp://doi.org/10.1103/PhysRevX.11.021032http://doi.org/10.1103/PhysRevX.11.021032https://doaj.org/toc/2160-3308The stochasticity of gene expression is manifested in the fluctuations of messenger ribonucleic acid and protein copy numbers within a cell lineage over time. While data of this type can be obtained for many generations, most mathematical models are unsuitable to interpret such data since they assume nongrowing cells. Here we develop a theoretical approach that quantitatively links the frequency content of lineage data to subcellular dynamics. We elucidate how the position, height, and width of the peaks in the power spectrum provide a distinctive fingerprint that encodes a wealth of information about mechanisms controlling transcription, translation, replication, degradation, bursting, promoter switching, cell cycle duration, cell division, gene dosage compensation, and cell-size homeostasis. Predictions are confirmed by analysis of single-cell Escherichia coli data obtained using fluorescence microscopy. Furthermore, by matching the experimental and theoretical power spectra, we infer the temperature-dependent gene expression parameters, without the need of measurements relating fluorescence intensities to molecule numbers.Chen JiaRamon GrimaAmerican Physical SocietyarticlePhysicsQC1-999ENPhysical Review X, Vol 11, Iss 2, p 021032 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Physics QC1-999
spellingShingle	Physics QC1-999 Chen Jia Ramon Grima Frequency Domain Analysis of Fluctuations of mRNA and Protein Copy Numbers within a Cell Lineage: Theory and Experimental Validation
description	The stochasticity of gene expression is manifested in the fluctuations of messenger ribonucleic acid and protein copy numbers within a cell lineage over time. While data of this type can be obtained for many generations, most mathematical models are unsuitable to interpret such data since they assume nongrowing cells. Here we develop a theoretical approach that quantitatively links the frequency content of lineage data to subcellular dynamics. We elucidate how the position, height, and width of the peaks in the power spectrum provide a distinctive fingerprint that encodes a wealth of information about mechanisms controlling transcription, translation, replication, degradation, bursting, promoter switching, cell cycle duration, cell division, gene dosage compensation, and cell-size homeostasis. Predictions are confirmed by analysis of single-cell Escherichia coli data obtained using fluorescence microscopy. Furthermore, by matching the experimental and theoretical power spectra, we infer the temperature-dependent gene expression parameters, without the need of measurements relating fluorescence intensities to molecule numbers.
format	article
author	Chen Jia Ramon Grima
author_facet	Chen Jia Ramon Grima
author_sort	Chen Jia
title	Frequency Domain Analysis of Fluctuations of mRNA and Protein Copy Numbers within a Cell Lineage: Theory and Experimental Validation
title_short	Frequency Domain Analysis of Fluctuations of mRNA and Protein Copy Numbers within a Cell Lineage: Theory and Experimental Validation
title_full	Frequency Domain Analysis of Fluctuations of mRNA and Protein Copy Numbers within a Cell Lineage: Theory and Experimental Validation
title_fullStr	Frequency Domain Analysis of Fluctuations of mRNA and Protein Copy Numbers within a Cell Lineage: Theory and Experimental Validation
title_full_unstemmed	Frequency Domain Analysis of Fluctuations of mRNA and Protein Copy Numbers within a Cell Lineage: Theory and Experimental Validation
title_sort	frequency domain analysis of fluctuations of mrna and protein copy numbers within a cell lineage: theory and experimental validation
publisher	American Physical Society
publishDate	2021
url	https://doaj.org/article/60f0ef6b28b34bc5b76b2422827e9f90
work_keys_str_mv	AT chenjia frequencydomainanalysisoffluctuationsofmrnaandproteincopynumberswithinacelllineagetheoryandexperimentalvalidation AT ramongrima frequencydomainanalysisoffluctuationsofmrnaandproteincopynumberswithinacelllineagetheoryandexperimentalvalidation
_version_	1718391075743203328

Frequency Domain Analysis of Fluctuations of mRNA and Protein Copy Numbers within a Cell Lineage: Theory and Experimental Validation

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