Evolution Of Complex Biological Systems Research Articles

The 'biomineralization toolkit' and the origin of animal skeletons.

Biomineralized skeletons are widespread in animals, and their origins can be traced to the latest Ediacaran or early Cambrian fossil record, in virtually all animal groups. The origin of animal skeletons is inextricably linked with the diversification of animal body plans and the dramatic changes in ecology and geosphere-biosphere interactions across the Ediacaran-Cambrian transition. This apparent independent acquisition of skeletons across diverse animal clades has been proposed to have been driven by co-option of a conserved ancestral genetic toolkit in different lineages at the same time. This 'biomineralization toolkit' hypothesis makes predictions of the early evolution of the skeleton, predictions tested herein through a critical review of the evidence from both the fossil record and development of skeletons in extant organisms. Furthermore, the distribution of skeletons is here plotted against a time-calibrated animal phylogeny, and the nature of the deep ancestors of biomineralizing animals interpolated using ancestral state reconstruction. All these lines of evidence point towards multiple instances of the evolution of biomineralization through the co-option of an inherited organic skeleton and genetic toolkit followed by the stepwise acquisition of more complex skeletal tissues under tighter biological control. This not only supports the 'biomineralization toolkit' hypothesis but also provides a model for describing the evolution of complex biological systems across the Ediacaran-Cambrian transition.

The Evolution of the idea of homeostasis: Determinism, stochastics, and chaos–self-organization

Homeostasis is a basic concept in investigating all living systems. Homeostasis and life are synonyms to a certain extent. The concept of homeostasis has been studied and developed for more than 150 years; however, only the 21st century brought us close to understanding homeostasis as a state of a biosystem and a continuous process. The chaos and self-organization theory (CSOT) proves that the conventional views based on determinism (functional analysis) or stochastics (when stochastic uncertainty or certainty occurs) cannot describe homeostasis as defined by W.B. Cannon and his followers. The new CSOT shows a clear boundary between determinism, stochastics (and deterministic chaos), and third-type systems, which have five special properties (principles of self-organization) and can be described in terms of quasiattractors. Kinematics is understood as the motion of quasi-attractors in the phase spaces of states. Complexity is introduced as the rate of evolution of complex biological systems, differing from the definition by Prigogine–Glansdorff. At the same time, concepts of uncertainty of the first and second types and an analog of the Heisenberg calculus are introduced for complexity. According to these concepts, complex biosystems are transferred from the area of traditional science to a new area of the theory of chaos and self-organization.

Энтропийный подход в оценке сезонной динамики параметров нервно-мышечной системы человека при влиянии локального холодового воздействия

The paper presents an experimental verification of Prigogine-Glansdorff’s theorem for evolution of complex biological systems and verification of Prigogine´s theorem for an open nonequilibrium thermodynamic (biological) systems. Entropy can be represented as a value that indicates how many different states are in the system, but it does not represent if they are stable, i.e. it is not linked to the concept of chaos, order and disorder act as deterministic and non-deterministic state of the system. Thus, we found that the conditions of Prigogine-Glansdorff’s theorem for studying the biosystems don’t suite because it is common (except for tremorogramm’s parameters of the spring period) that the entropy of parameters of tremorogramms and myograms statistically doesn’t change.

Theoretical and empirical perspectives on the scaling of supply and demand in social insect colonies

One of the central questions in physiological ecology is how energetic constraints affect organismal performance and the dynamics of ecological systems. Social insect colonies integrate the balance of supply and demand across levels of biological organization such that the individual components are simultaneously serving as the supply transport network and also the source of energetic demand. An increasing number of studies have demonstrated that the per-capita metabolic rates of individuals within social insect colonies decrease with increasing colony size, a metabolic hypometry much like the pattern exhibited by individual organisms. An important question is thus, whether this scaling pattern is a result of an energetic supply constraint or evidence for an emergent economy of scale. This review synthesizes theoretical models and results from empirical studies on the scaling of resource supply and demand in social insect colonies. Scaling in biology is a powerful tool to unify the study of diverse concepts and organisms; increased integration of mechanistic realism into metabolic models will improve our understanding of the evolution of complex biological systems.

Advanced in silico Approaches in Antiviral Research

Computer-aided drug design has seen constantly increasing application over the past two decades in every area of drug discovery. It can offer significant advantages over conventional approaches, being far less expensive and faster than conventional methods, or offering the possibility to predict molecular behaviours that cannot be elucidated in any other way. Recent developments in software and hardware make it possible to simulate increasingly complex molecular environments, widening the applicability of in silico studies from the interactions of small molecules with key protein residues, to the simulation of the dynamic evolution of complex biological systems with atomic resolution. Antiviral research offers several open challenges, from a biological, biochemical and pharmaceutical point of view. Computational approaches are already providing some answers and will undoubtedly give more in the near future. Here, we present a brief overview of the cutting-edge computational methods that play a major role in present and future antiviral research.

Development of the cypriniform protrusible jaw complex in Danio rerio: Constructional insights for evolution

Studies on the evolution of complex biological systems are difficult because the construction of these traits cannot be observed during the course of evolution. Complex traits are defined as consisting of multiple elements, often of differing embryological origins, with multiple linkages integrated to form a single functional unit. An example of a complex system is the cypriniform oral jaw apparatus. Cypriniform fishes possess an upper jaw characterized by premaxillary protrusion during feeding. Cypriniforms effect protrusion via the kinethmoid, a synapomorphy for the order. The kinethmoid is a sesamoid ossification suspended by ligaments attaching to the premaxillae, maxillae, palatines, and neurocranium. Upon mouth opening, the kinethmoid rotates as the premaxillae move anteriorly. Along with bony and ligamentous elements, there are three divisions of the adductor mandibulae that render this system functional. It is unclear how cypriniform jaws evolved because although the evolution of sesamoid elements is common, the incorporation of the kinethmoid into the protrusible jaw results in a function that is atypical for sesamoids. Developmental studies can show how biological systems are assembled within individuals and offer clues about how traits might have been constructed during evolution. We investigated the development of the protrusible upper jaw in zebrafish to generate hypotheses regarding the evolution of this character. Early in development, the adductor mandibulae arises as a single unit. The muscle divides after ossification of the maxillae, on which the A1 division will ultimately insert. A cartilaginous kinethmoid first develops within the intermaxillary ligament; it later ossifies at points of ligamentous attachment. We combine our structural developmental data with published kinematic data at key developmental stages and discuss potential functional advantages in possessing even the earliest stages of a system for protrusion.

Evolution of Soldier-Specific Venomous Protease in Social Aphids

In social aphids of the genus Tuberaphis a cysteine protease gene of the family cathepsin B exhibits soldier-specific expression and intestinal protease production. The product is orally excreted and injected by soldier nymphs into natural enemies, thereby exerting an insecticidal activity. In an attempt to gain insights into when and how the novel venomous protease for the altruistic caste has evolved, we investigated the soldier-specific type (S-type) and nonspecific type (N-type) cathepsin B genes from social and nonsocial aphids. All the social aphids examined, representing the genera Tuberaphis, Astegopteryx, and Cerataphis, possessed both the S-type and N-type genes. Phylogenetically distant nonsocial aphids also possessed cathepsin B genes allied to the S-type and the N-type, indicating the evolutionary origin of these genes in the common ancestor of extant aphids. In Tuberaphis species the S-type genes exhibited significant soldier-specific expression and accelerated molecular evolution whereas the N-type genes did not. In Astegopteryx and Cerataphis species, meanwhile, both the S-type and N-type genes exhibited neither remarkable soldier-specific expression nor accelerated molecular evolution. These results suggest that the S-type gene acquired the soldier-specific expression and the venom function after divergence of the genus Tuberaphis. On the structural model of the S-type protease of Tuberaphis styraci the accelerated molecular evolution was associated with the molecular surface rather than the catalytic cleft, suggesting that the venom activity was probably acquired by relatively minor modifications on the molecular surface rather than by generation of a novel active site. In Cerataphis jamuritsu the S-type gene was, although containing a stop codon, structurally almost intact and still transcribed, suggesting recent pseudogenization of the gene copy and possible relevance to relaxed functional constraint in the highly multiplied protease gene family. On the basis of these results we suggest that the massive amplification in aphid cathepsin B genes might have predisposed the evolution of venomous protease in the social aphid lineage and argue that gene duplication, accelerated molecular evolution, and acquisition of novel gene function must have played considerable roles in the evolution of complex biological systems including insect sociality.

Mutagenic Evidence for the Optimal Control of Evolutionary Dynamics

Elucidating the fitness measures optimized during the evolution of complex biological systems is a major challenge in evolutionary theory. We present experimental evidence and an analytical framework demonstrating how biochemical networks exploit optimal control strategies in their evolutionary dynamics. Optimal control theory explains a striking pattern of extremization in the redox potentials of electron transport proteins, assuming only that their fitness measure is a control objective functional with bounded controls.

Oncogenic re-wiring of cellular signaling pathways

Signaling pathways in mammalian cells are assembled and regulated by a finely controlled network of protein-protein and protein-phospholipid interactions, mediated by dedicated signaling domains and their cognate binding motifs. The domain-based modular architecture of signaling proteins may have facilitated the evolution of complex biological systems, and can be exploited experimentally to generate synthetic signaling pathways and artificial mechanisms of autoregulation. Pathogenic proteins, such as those encoded by bacteria and viruses, frequently form ectopic signaling complexes to respecify cellular behavior. In a similar fashion, proteins expressed as a consequence of oncogenic fusions, mutations or amplifications can elicit ectopic protein-protein interactions that re-wire signaling pathways, in a fashion that promotes malignancy. Compounds that directly or indirectly reverse these aberrant interactions offer new possibilities for therapy in cancer.

Evolution in random environment and structural instability

We consider stability and evolution of complex biological systems, in particular, genetic networks. We focus our attention on the problem of homeostasis in these systems with respect to fluctuations of an external medium (the problem is posed by Gromov and Carbone). Using a certain measure of stochastic stability, we show that a generic system with fixed parameters is unstable, i.e., the probability to support homeostasis converges to zero as the time T goes to infinity. However, if we consider a population of unstable systems that are capable to evolve (change their parameters), then such a population can be stable as T → ∞. This means that the probability to survive may be nonzero as T → ∞. Evolution algorithms that provide stability of populations are not trivial. We show that the mathematical results on evolution algorithms are consistent with experimental data on genetic evolution. Bibliography: 45 titles.