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Temperature-dependence of the single-cell variability in the kinetics of transcription activation in Escherichia coli

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Temperature-dependence of the single-cell variability in the kinetics of transcription activation in Escherichia coli. / Goncalves, Nadia; Startceva, Sofia; Palma, Cristina; Bahrudeen, Mohamed; Oliveira, Samuel; Ribeiro, Andre Sanches.

In: Physical Biology, Vol. 15, No. 2, 01.2018.

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Goncalves, Nadia ; Startceva, Sofia ; Palma, Cristina ; Bahrudeen, Mohamed ; Oliveira, Samuel ; Ribeiro, Andre Sanches. / Temperature-dependence of the single-cell variability in the kinetics of transcription activation in Escherichia coli. In: Physical Biology. 2018 ; Vol. 15, No. 2.

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@article{da549803f4444900ba3075c41ef923bc,
title = "Temperature-dependence of the single-cell variability in the kinetics of transcription activation in Escherichia coli",
abstract = "From in vivo single-cell, single-RNA measurements of the activation times and subsequent steady-state active transcription kinetics of a single-copy Lac-ara-1 promoter in Escherichia coli, we characterize the intake kinetics of the inducer (IPTG) from the media, following temperature shifts. For this, for temperature shifts of various degrees, we obtain the distributions of transcription activation times as well as the distributions of intervals between consecutive RNA productions following activation in individual cells. We then propose a novel methodology that makes use of deconvolution techniques to extract the mean and the variability of the distribution of intake times. We find that cells, following shifts to low temperatures have higher intake times, although, counter-intuitively, the cell-to-cell variability of these times is lower. We validate the results using a new methodology for direct estimation of mean intake times from measurements of activation times at various inducer concentrations. The results confirm that E. coli's inducer intake times from the environment are significantly higher, following a shift to a sub-optimal temperature. Finally, we provide evidence that this is likely due to the emergence of additional rate-limiting steps in the intake process at low temperatures, explaining the reduced cell-to-cell variability in intake times.",
author = "Nadia Goncalves and Sofia Startceva and Cristina Palma and Mohamed Bahrudeen and Samuel Oliveira and Ribeiro, {Andre Sanches}",
note = "{\circledC} 2017 IOP Publishing Ltd.",
year = "2018",
month = "1",
doi = "10.1088/1478-3975/aa9ddf",
language = "English",
volume = "15",
journal = "Physical Biology",
issn = "1478-3967",
publisher = "IOP Publishing",
number = "2",

}

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TY - JOUR

T1 - Temperature-dependence of the single-cell variability in the kinetics of transcription activation in Escherichia coli

AU - Goncalves, Nadia

AU - Startceva, Sofia

AU - Palma, Cristina

AU - Bahrudeen, Mohamed

AU - Oliveira, Samuel

AU - Ribeiro, Andre Sanches

N1 - © 2017 IOP Publishing Ltd.

PY - 2018/1

Y1 - 2018/1

N2 - From in vivo single-cell, single-RNA measurements of the activation times and subsequent steady-state active transcription kinetics of a single-copy Lac-ara-1 promoter in Escherichia coli, we characterize the intake kinetics of the inducer (IPTG) from the media, following temperature shifts. For this, for temperature shifts of various degrees, we obtain the distributions of transcription activation times as well as the distributions of intervals between consecutive RNA productions following activation in individual cells. We then propose a novel methodology that makes use of deconvolution techniques to extract the mean and the variability of the distribution of intake times. We find that cells, following shifts to low temperatures have higher intake times, although, counter-intuitively, the cell-to-cell variability of these times is lower. We validate the results using a new methodology for direct estimation of mean intake times from measurements of activation times at various inducer concentrations. The results confirm that E. coli's inducer intake times from the environment are significantly higher, following a shift to a sub-optimal temperature. Finally, we provide evidence that this is likely due to the emergence of additional rate-limiting steps in the intake process at low temperatures, explaining the reduced cell-to-cell variability in intake times.

AB - From in vivo single-cell, single-RNA measurements of the activation times and subsequent steady-state active transcription kinetics of a single-copy Lac-ara-1 promoter in Escherichia coli, we characterize the intake kinetics of the inducer (IPTG) from the media, following temperature shifts. For this, for temperature shifts of various degrees, we obtain the distributions of transcription activation times as well as the distributions of intervals between consecutive RNA productions following activation in individual cells. We then propose a novel methodology that makes use of deconvolution techniques to extract the mean and the variability of the distribution of intake times. We find that cells, following shifts to low temperatures have higher intake times, although, counter-intuitively, the cell-to-cell variability of these times is lower. We validate the results using a new methodology for direct estimation of mean intake times from measurements of activation times at various inducer concentrations. The results confirm that E. coli's inducer intake times from the environment are significantly higher, following a shift to a sub-optimal temperature. Finally, we provide evidence that this is likely due to the emergence of additional rate-limiting steps in the intake process at low temperatures, explaining the reduced cell-to-cell variability in intake times.

U2 - 10.1088/1478-3975/aa9ddf

DO - 10.1088/1478-3975/aa9ddf

M3 - Article

VL - 15

JO - Physical Biology

JF - Physical Biology

SN - 1478-3967

IS - 2

ER -