Reconsidering plant memory: Intersections between stress recovery, RNA turnover, and epigenetics

PA Crisp, D Ganguly, SR Eichten, JO Borevitz… - Science …, 2016 - science.org
Plants grow in dynamic environments where they can be exposed to a multitude of stressful
factors, all of which affect their development, yield, and, ultimately, reproductive success …

Controlling gene expression in response to stress

E De Nadal, G Ammerer, F Posas - Nature Reviews Genetics, 2011 - nature.com
Acute stress puts cells at risk, and rapid adaptation is crucial for maximizing cell survival.
Cellular adaptation mechanisms include modification of certain aspects of cell physiology …

Poly (A)-tail profiling reveals an embryonic switch in translational control

AO Subtelny, SW Eichhorn, GR Chen, H Sive… - Nature, 2014 - nature.com
Poly (A) tails enhance the stability and translation of most eukaryotic messenger RNAs, but
difficulties in globally measuring poly (A)-tail lengths have impeded greater understanding of …

Non-invasive measurement of mRNA decay reveals translation initiation as the major determinant of mRNA stability

LY Chan, CF Mugler, S Heinrich, P Vallotton, K Weis - Elife, 2018 - elifesciences.org
The cytoplasmic abundance of mRNAs is strictly controlled through a balance of production
and degradation. Whereas the control of mRNA synthesis through transcription has been …

Studying and modelling dynamic biological processes using time-series gene expression data

Z Bar-Joseph, A Gitter, I Simon - Nature Reviews Genetics, 2012 - nature.com
Biological processes are often dynamic, thus researchers must monitor their activity at
multiple time points. The most abundant source of information regarding such dynamic …

Metabolic labeling of RNA uncovers principles of RNA production and degradation dynamics in mammalian cells

M Rabani, JZ Levin, L Fan, X Adiconis… - Nature …, 2011 - nature.com
Cellular RNA levels are determined by the interplay of RNA production, processing and
degradation. However, because most studies of RNA regulation do not distinguish the …

[HTML][HTML] Gene expression is circular: factors for mRNA degradation also foster mRNA synthesis

G Haimovich, DA Medina, SZ Causse, M Garber… - Cell, 2013 - cell.com
Maintaining proper mRNA levels is a key aspect in the regulation of gene expression. The
balance between mRNA synthesis and decay determines these levels. We demonstrate that …

Dynamic transcriptome analysis measures rates of mRNA synthesis and decay in yeast

C Miller, B Schwalb, K Maier, D Schulz… - Molecular systems …, 2011 - embopress.org
To obtain rates of mRNA synthesis and decay in yeast, we established dynamic
transcriptome analysis (DTA). DTA combines non‐perturbing metabolic RNA labeling with …

Global analysis of eukaryotic mRNA degradation reveals Xrn1-dependent buffering of transcript levels

M Sun, B Schwalb, N Pirkl, KC Maier, A Schenk… - Molecular cell, 2013 - cell.com
The rates of mRNA synthesis and degradation determine cellular mRNA levels and can be
monitored by comparative dynamic transcriptome analysis (cDTA) that uses nonperturbing …

High-resolution sequencing and modeling identifies distinct dynamic RNA regulatory strategies

M Rabani, R Raychowdhury, M Jovanovic, M Rooney… - Cell, 2014 - cell.com
Cells control dynamic transitions in transcript levels by regulating transcription, processing,
and/or degradation through an integrated regulatory strategy. Here, we combine RNA …