Book Chapter10.1007/978-1-4614-3567-9_11
Evolutionary Principles Underlying Structure and Response Dynamics of Cellular Networks
Arno Steinacher,Orkun S. Soyer +1 more
16
TL;DR: It is argued that this evolutionary framework could lead to deciphering evolutionary origin and relevance of proposed design principles, thereby allowing to predict their presence or absence in an organism based on its environment and biochemistry and their effect on its future evolution.
read more
Abstract: The network view in systems biology, in conjunction with the continuing development of experimental technologies, is providing us with the key structural and dynamical features of both cell-wide and pathway-level regulatory, signaling and metabolic systems These include for example modularity and presence of hub proteins at the structural level and ultrasensitivity and feedback control at the level of dynamics The uncovering of such features, and the seeming commonality of some of them, makes many systems biologists believe that these could represent design principles that underpin cellular systems across organisms Here, we argue that such claims on any observed feature requires an understanding of how it has emerged in evolution and how it can shape subsequent evolution We review recent and past studies that aim to achieve such evolutionary understanding for observed features of cellular networks We argue that this evolutionary framework could lead to deciphering evolutionary origin and relevance of proposed design principles, thereby allowing to predict their presence or absence in an organism based on its environment and biochemistry and their effect on its future evolution
read more
Chat with Paper
AI Agents for this Paper
Find similar papers on Google Scholar, PubMed and Arxiv
Write a critical review of this paper
Analyze citations of this paper to find unaddressed research gaps
Citations
•Journal Article
The yeast coexpression network has a small-world, scale-free architecture and can be explained by a simple model
TL;DR: A new model is derived based on the observation that there is a positive correlation between the sequence similarity of paralogues and their probability of coexpression or sharing of transcription factor binding sites (TFBSs) that reproduces the scale‐free, small‐world architecture of the coregulation network and the homology relations between coregulated genes without the need for selection.
236
Explanatory Integration Challenges in Evolutionary Systems Biology
TL;DR: This article clarifies some conceptual difficulties of this integration project of evolutionary biology with developmental dynamics, and shows how they can be overcome.
37
Experimental evolution of protein-protein interaction networks.
TL;DR: How integrating evolutionary history with experimental systems that combine tools drawn from molecular evolution, synthetic biology and biochemistry allow us to identify the underlying mechanisms of organismal evolution, particularly from the perspective of protein interaction networks is discussed.
Disentangling biological signaling networks by dynamic coupling of signaling lipids to modifying enzymes
TL;DR: The potential of the transcription factor Steroidogenic Factor-1 to apply generally to nuclear lipid signaling is discussed, with particular attention given to the nuclear receptor superfamily of transcription factors and their phospholipid ligands.
25
Can biological complexity be reverse engineered
TL;DR: It is argued that reverse engineering is compatible with a dynamic view of organisms and may even help to facilitate an integrated account that bridges the gap between mechanistic and systems approaches.
References
Emergence of Scaling in Random Networks
TL;DR: A model based on these two ingredients reproduces the observed stationary scale-free distributions, which indicates that the development of large networks is governed by robust self-organizing phenomena that go beyond the particulars of the individual systems.
39.1K
Network biology: understanding the cell's functional organization
TL;DR: This work states that rapid advances in network biology indicate that cellular networks are governed by universal laws and offer a new conceptual framework that could potentially revolutionize the view of biology and disease pathologies in the twenty-first century.
Error and attack tolerance of complex networks
TL;DR: It is found that scale-free networks, which include the World-Wide Web, the Internet, social networks and cells, display an unexpected degree of robustness, the ability of their nodes to communicate being unaffected even by unrealistically high failure rates.
8.4K
•Book
Infectious Diseases of Humans: Dynamics and Control
Roy M. Anderson,Robert M. May +1 more
- 11 Jul 1991
TL;DR: This book discusses the biology of host-microparasite associations, dynamics of acquired immunity heterogeneity within the human community indirectly transmitted helminths, and the ecology and genetics of hosts and parasites.
8.3K
Network Motifs: Simple Building Blocks of Complex Networks
TL;DR: Network motifs, patterns of interconnections occurring in complex networks at numbers that are significantly higher than those in randomized networks, are defined and may define universal classes of networks.