New insights on the Dynamic Cellular Metabolism

TL;DR

This paper proposes a new framework for cellular molecular information storage, highlighting the interplay between dynamic metabolic memory governed by Hopfield-like attractors and structural epigenetic modifications, influencing cellular development.

Contribution

It introduces a novel conceptual model linking metabolic attractor dynamics with epigenetic modifications as components of cellular memory.

Findings

Hopfield-like attractor dynamics observed in enzymatic networks.

Metabolic memory can be transferred to covalent molecular modifications.

Structural and functional systems coordinate cellular development.

Abstract

A large number of studies have shown the existence of metabolic covalent modifications in different molecular structures, able to store biochemical information that is not encoded by the DNA. Some of these covalent mark patterns can be transmitted across generations (epigenetic changes). Recently, the emergence of Hopfield-like attractor dynamics has been observed in the self-organized enzymatic networks, which have the capacity to store functional catalytic patterns that can be correctly recovered by the specific input stimuli. The Hopfield-like metabolic dynamics are stable and can be maintained as a long-term biochemical memory. In addition, specific molecular information can be transferred from the functional dynamics of the metabolic networks to the enzymatic activity involved in the covalent post-translational modulation so that determined functional memory can be embedded in multiple stable molecular marks. Both the metabolic dynamics governed by Hopfield-type attractors (functional processes) and the enzymatic covalent modifications of determined molecules (structural dynamic processes) seem to represent the two stages of the dynamical memory of cellular metabolism (metabolic memory). Epigenetic processes appear to be the structural manifestation of this cellular metabolic memory. Here, a new framework for molecular information storage in the cell is presented, which is characterized by two functionally and molecularly interrelated systems: a dynamic, flexible and adaptive system (metabolic memory) and an essentially conservative system (genetic memory). The molecular information of both systems seems to coordinate the physiological development of the whole cell.