Exploiting information and control theory for directing gene expression in cell populations
L Henrion, M Delvenne, F Bajoul Kakahi… - Frontiers in …, 2022 - frontiersin.org
Microbial populations can adapt to adverse environmental conditions either by appropriately
sensing and responding to the changes in their surroundings or by stochastically switching …
sensing and responding to the changes in their surroundings or by stochastically switching …
Phage infection and lysis
JJ Dennehy, ST Abedon - Bacteriophages: biology, technology, therapy, 2021 - Springer
Viruses are differentiated from other mobile genetic elements by the encapsidation of their
genomes during some stage of their life cycles. It is during their infection of bacteria that …
genomes during some stage of their life cycles. It is during their infection of bacteria that …
Noise suppression in stochastic genetic circuits using pid controllers
Inside individual cells, protein population counts are subject to molecular noise due to low
copy numbers and the inherent probabilistic nature of biochemical processes. We …
copy numbers and the inherent probabilistic nature of biochemical processes. We …
Bacterial replication initiation as precision control by protein counting
Balanced biosynthesis is the hallmark of bacterial cell physiology, where the concentrations
of stable proteins remain steady. However, this poses a conceptual challenge to modeling …
of stable proteins remain steady. However, this poses a conceptual challenge to modeling …
Exact distribution of threshold crossing times for protein concentrations: Implication for biological timekeeping
Stochastic protein accumulation up to some concentration threshold sets the timing of many
cellular physiological processes. Here we obtain the exact distribution of first threshold …
cellular physiological processes. Here we obtain the exact distribution of first threshold …
Infection by bacteriophage lambda: an evolving paradigm for cellular individuality
I Golding - Current Opinion in Microbiology, 2018 - Elsevier
Highlights•E. coli infection by bacteriophage lambda is a paradigm for cellular
individuality.•Early studies attributed cell–cell differences to random biochemical …
individuality.•Early studies attributed cell–cell differences to random biochemical …
Mechanisms of cell size regulation in slow-growing Escherichia coli cells: discriminating models beyond the adder
Under ideal conditions, Escherichia coli cells divide after adding a fixed cell size, a strategy
known as the adder. This concept applies to various microbes and is often explained as the …
known as the adder. This concept applies to various microbes and is often explained as the …
An ABA-GA bistable switch can account for natural variation in the variability of Arabidopsis seed germination time
K Abley, P Formosa-Jordan, H Tavares, EYT Chan… - Elife, 2021 - elifesciences.org
Genetically identical plants growing in the same conditions can display heterogeneous
phenotypes. Here we use Arabidopsis seed germination time as a model system to examine …
phenotypes. Here we use Arabidopsis seed germination time as a model system to examine …
Relating cellular signaling timescales to single-molecule kinetics: A first-passage time analysis of Ras activation by SOS
Son of Sevenless (SOS) is a Ras guanine nucleotide exchange factor (GEF) that plays a
central role in numerous cellular signaling pathways. Like many other signaling molecules …
central role in numerous cellular signaling pathways. Like many other signaling molecules …
The linear framework II: using graph theory to analyse the transient regime of Markov processes
KM Nam, J Gunawardena - Frontiers in Cell and Developmental …, 2023 - frontiersin.org
The linear framework uses finite, directed graphs with labelled edges to model biomolecular
systems. Graph vertices represent chemical species or molecular states, edges represent …
systems. Graph vertices represent chemical species or molecular states, edges represent …