Systematic molecular evolution enables robust biomolecule discovery
EA DeBenedictis, EJ Chory, DW Gretton, B Wang… - Nature …, 2022 - nature.com
Evolution occurs when selective pressures from the environment shape inherited variation
over time. Within the laboratory, evolution is commonly used to engineer proteins and RNA …
over time. Within the laboratory, evolution is commonly used to engineer proteins and RNA …
[HTML][HTML] Adaptive circuits in synthetic biology
T Frei, M Khammash - Current Opinion in Systems Biology, 2021 - Elsevier
One of the most remarkable features of biological systems is their ability to adapt to the
constantly changing environment. By harnessing principles of control theory, synthetic …
constantly changing environment. By harnessing principles of control theory, synthetic …
Dynamical allocation of cellular resources as an optimal control problem: novel insights into microbial growth strategies
Microbial physiology exhibits growth laws that relate the macromolecular composition of the
cell to the growth rate. Recent work has shown that these empirical regularities can be …
cell to the growth rate. Recent work has shown that these empirical regularities can be …
Fast, cheap and somewhat in control
AP Arkin, DA Fletcher - Genome biology, 2006 - Springer
Efforts to manipulate living organisms have raised the question of whether engineering
principles of hierarchy, abstraction and design can be applied to biological systems. Here …
principles of hierarchy, abstraction and design can be applied to biological systems. Here …
Downward causation by information control in micro-organisms
L Jaeger, ER Calkins - Interface Focus, 2012 - royalsocietypublishing.org
The concepts of functional equivalence classes and information control in living systems are
useful to characterize downward (or top-down) causation by feedback information control in …
useful to characterize downward (or top-down) causation by feedback information control in …
Evolutionary rescue: linking theory for conservation and medicine
Evolutionary responses that rescue populations from extinction when drastic environmental
changes occur can be friend or foe. The field of conservation biology is concerned with the …
changes occur can be friend or foe. The field of conservation biology is concerned with the …
Dynamically reshaping signaling networks to program cell fate via genetic controllers
Introduction Engineering of cell fate through synthetic gene circuits requires methods to
precisely implement control around native decision-making pathways and offers the …
precisely implement control around native decision-making pathways and offers the …
Tradeoffs and optimality in the evolution of gene regulation
Cellular regulation is believed to evolve in response to environmental variability. However,
this has been difficult to test directly. Here, we show that a gene regulation system evolves to …
this has been difficult to test directly. Here, we show that a gene regulation system evolves to …
Understanding biology by reverse engineering the control
CJ Tomlin, JD Axelrod - Proceedings of the National …, 2005 - National Acad Sciences
Faced with the problem of con-trolling a physical system, an en-gineer will identify a model
for the system, and then use this model to design a process for automatically actuating some …
for the system, and then use this model to design a process for automatically actuating some …
Achieving optimal growth through product feedback inhibition in metabolism
S Goyal, J Yuan, T Chen, JD Rabinowitz… - PLoS computational …, 2010 - journals.plos.org
Recent evidence suggests that the metabolism of some organisms, such as Escherichia coli,
is remarkably efficient, producing close to the maximum amount of biomass per unit of …
is remarkably efficient, producing close to the maximum amount of biomass per unit of …