Systems principle for separating out neuron groups as relatively independent working units

The respiratory center has been studied as an example of the neural center organization. This organization is presented by a number of cellular populations, each of them consisting of several neuronal groups (components of the populations) of various types. These groups are considered as relatively autonomic sets of various neuronal categories, where 1-5 large efferent (phase) neurons are present as a central link. Analyzing the spatial arrangement and functional interrelations of the neurons in the group, it is possible to conclude that the groups revealed (respirons) are functional units of neuronal activity. Applying the theory of functional system (P. K. Anokhin) for analyzing connections between the neurons in the group and the afferent impulsation that gets into action sphere of the group, it is possible to formulate certain criteria on integrity and a relative functional independence of the neuronal groups as working units of neuronal activity, in which the reticular component of the groups as widely represented in all parts of the CNS, a suggestion is made that the respirons are the natural invariant of the structure when the cerebral function is reorganized.     

Honey bee colonies are group-level adaptive units

It is not widely recognized that natural selection has produced adaptive units at the level of groups. Multilevel selection theory shows that groups can evolve a high level of functional organization when between-group selection predominates over within-group selection. Strong empirical evidence that natural selection has produced adaptive units at the group level comes from studies of social insects in which we find colonies in certain species functioning as highly integrated units. The functional organization of a social insect colony is best understood for honey bees. Recent experimental analyses of honey bee colonies have revealed striking group-level adaptations that improve the foraging efficiency of colonies, including special systems of communication and feedback control. These findings are reviewed with the aim of showing that evolution has produced adaptively organized entities at the group level.     

The adaptive value of sociality in mammalian groups

According to behavioural ecology theory, sociality evolves when the net benefits of close association with conspecifics exceed the costs. The nature and relative magnitude of the benefits and costs of sociality are expected to vary across species and habitats. When sociality is favoured, animals may form groups that range from small pair-bonded units to huge aggregations. The size and composition of social groups have diverse effects on morphology and behaviour, ranging from the extent of sexual dimorphism to brain size, and the structure of social relationships. This general argument implies that sociality has fitness consequences for individuals. However, for most mammalian species, especially long-lived animals like primates, there are sizable gaps in the chain of evidence that links sociality and social bonds to fitness outcomes. These gaps reflect the difficulty of quantifying the cumulative effects of behavioural interactions on fitness and the lack of information about the nature of social relationships among individuals in most taxa. Here, I review what is known about the reproductive consequences of sociality for mammals.     

Life histories as adaptive strategies

Optimal control theory is used to produce a general model of life history evolution in a stationary environment. Several disparate trends in current theorizing on life histories are thereby unified. An optimal life history (OLH) is defined as one which maximizes individual fitness (the Malthusian parameter in density-independent populations, the carrying capacity in density-dependent ones). Since the components of fitness depend on the phenotype, the search for an OLH is accomplished in phenotypic space. The optimization is controlled by apportioning the energy obtained at any age between conflicting processes of growth, survival and reproduction. The methods of dynamic optimization which pertain to this problem are reviewed briefly, and its results interpreted biologically. Of these, Pontryagin's method is selected and used to examine some simple models. This method leads one to define a dual variable matched to each phenotypic variable, the prospective value. This provides an indicator of the selective pressures acting at any age on a phenotypic feature to push it towards coincidence with the OLH. This also suggests that at ages in which these dual variables are low (i.e. late ages) there will be greater phenotypic variability around the OLH in any population. The problem of the optimal distribution of reproductive effort over the life history is discussed as well.     

Cultural traits as units of analysis

Cultural traits have long been used in anthropology as units of transmission that ostensibly reflect behavioural characteristics of the individuals or groups exhibiting the traits. After they are transmitted, cultural traits serve as units of replication in that they can be modified as part of an individual's cultural repertoire through processes such as recombination, loss or partial alteration within an individual's mind. Cultural traits are analogous to genes in that organisms replicate them, but they are also replicators in their own right. No one has ever seen a unit of transmission, either behavioural or genetic, although we can observe the effects of transmission. Fortunately, such units are manifest in artefacts, features and other components of the archaeological record, and they serve as proxies for studying the transmission (and modification) of cultural traits, provided there is analytical clarity over how to define and measure the units that underlie this inheritance process.     

A model for the adaptive significance of partial reproductive synchrony within social units

Summary Synchronized breeding in social units of animals (like colonies and herds) is often interpreted as a strategy against predators (predator satiation), and one might expect to find little variation in the relative date of starting reproduction. However, data on many colonies or herds show only partial synchrony. Our hypothesis is that this is not simply unavoidable variance but may be an adaption against predators. We consider the case where the members of a social unit can avoid predation actively by cooperation. If the contribution to this predator avoidance is different for individuals engaged in different phases of reproduction, our model shows that partial synchrony is of adaptive significance. Data on the black-headed gull (Larus ridibundus) are used to test the model's predictions.     

Gaia as a complex adaptive system

We define the Gaia system of life and its environment on Earth, review the status of the Gaia theory, introduce potentially relevant concepts from complexity theory, then try to apply them to Gaia. We consider whether Gaia is a complex adaptive system (CAS) in terms of its behaviour and suggest that the system is self-organizing but does not reside in a critical state. Gaia has supported abundant life for most of the last 3.8 Gyr. Large perturbations have occasionally suppressed life but the system has always recovered without losing the capacity for large-scale free energy capture and recycling of essential elements. To illustrate how complexity theory can help us understand the emergence of planetary-scale order, we present a simple cellular automata (CA) model of the imaginary planet Daisyworld. This exhibits emergent self-regulation as a consequence of feedback coupling between life and its environment. Local spatial interaction, which was absent from the original model, can destabilize the system by generating bifurcation regimes. Variation and natural selection tend to remove this instability. With mutation in the model system, it exhibits self-organizing adaptive behaviour in its response to forcing. We close by suggesting how artificial life ('Alife') techniques may enable more comprehensive feasibility tests of Gaia.     

Catchments as conservation units for riverine biodiversity

The geological structure and longitudinal nature of river systems provide a possible barrier to the dispersal of lotic organisms. This has the potential to drive evolutionary processes such as genetic differentiation and subsequent allopatric speciation. In the conservation of lotic ecosystems population and evolutionary processes have largely been ignored. The traditional approach to river conservation has been focussed toward maintaining the physical habitat that provides the template for the biota. With a shift toward recognising the catchment as the primary operational unit for the conservation and management of lotic systems an examination of the biological relevance of these catchment units is required. This paper examines the structural influence of catchment units over population structure in lotic organisms and the extent to which catchments reflect populations and represent evolutionarily significant units. These being unique assemblages representing segments of biological diversity that share a common evolutionary lineage and contain the potential for a unique evolutionary future. This is of particular importance given the increased use of inter-basin water transfers to move water between historically isolated catchments and recognition of the catchment as the primary unit for the conservation and management of river ecosystems.     

Double-stranded DNA liquid-crystalline dispersions as biosensing units

Three different approaches to constructing biosensing units based on double-stranded (ds) DNA molecules, capable of detecting various biologically active compounds, are considered. The first approach is based on the abnormal optical activity of the liquid-crystalline dispersion formed from ds DNA molecules, modified by relevant physical factors or treated with biologically active compounds. The second one is based on the abnormal optical activity of the liquid-crystalline dispersions formed first from the ds DNA and then treated with coloured biologically active compounds. The third one is based on the abnormal optical activity, specific to particles of the liquid-crystalline dispersions, where the neighbouring DNA molecules are crosslinked by artificial polymeric bridges. These approaches permit the detection of biologically relevant compounds of various origins.     

Allyl and allyloxycarbonyl groups as versatile protecting groups in nucleotide synthesis

Allyl group serves as a useful protecting group for an protection of sugar hydroxyls and amino and imide moieties of by brief treatment with a palladium catalyst and a variety of nucleophiles at room temperature.     

Novel liquid immobilized chymotrypsin as nanostructural bioreactor units

Biotechnology Techniques -     

Personal adaptive clusters as containers for scientific jobs

We describe a system for creating personal clusters in user-space to support the submission and management of thousands of compute-intensive serial jobs to the network-connected compute resources on the NSF TeraGrid. The system implements a robust infrastructure that submits and manages job proxies across a distributed computing environment. These job proxies contribute resources to personal clusters created dynamically for a user on-demand. The personal clusters then adapt to the prevailing job load conditions at the distributed sites by migrating job proxies to sites expected to provide resources more quickly. Furthermore, the system allows multiple instances of these personal clusters to be created as containers for individual scientific experiments, allowing the submission environment to be customized for each instance. The version of the system described in this paper allows users to build large personal Condor and Sun Grid Engine clusters on the TeraGrid. Users then manage their scientific jobs, within each personal cluster, with a single uniform interface using the feature-rich functionality found in these job management environments.

Heterogeneity as an adaptive trait of microbial populations

The review deals with heterogeneity of bacterial populations, a superorganismic characteristic providing for their adaptation to environmental conditions at the population-communication level. This phenomenon attracts increasing attention as an example of collective forms of microbial behavior and the mechanisms of cell survival in communities. Heterogeneity of bacterial populations may be discrete or continuous and may result from both phenotypic and genotypic variations. Heterogeneity of microbial cells results from the interaction of internal and environmental factors, as well as from random fluctuations of the biochemical and physiological characteristics. Cell heterogeneity improves the survival of bacterial populations under heterogeneous or variable environmental conditions, as well as under the effect of stress factors. This phenomenon should be taken into account for the development of strategies for cultivation of the biotechnologically important microorganisms and for the rational therapy of infections.     

The PDZ domain as a complex adaptive system

Specific protein associations define the wiring of protein interaction networks and thus control the organization and functioning of the cell as a whole. Peptide recognition by PDZ and other protein interaction domains represents one of the best-studied classes of specific protein associations. However, a mechanistic understanding of the relationship between selectivity and promiscuity commonly observed in the interactions mediated by peptide recognition modules as well as its functional meaning remain elusive. To address these questions in a comprehensive manner, two large populations of artificial and natural peptide ligands of six archetypal PDZ domains from the synaptic proteins PSD95 and SAP97 were generated by target-assisted iterative screening (TAIS) of combinatorial peptide libraries and by synthesis of proteomic fragments, correspondingly. A comparative statistical analysis of affinity-ranked artificial and natural ligands yielded a comprehensive picture of known and novel PDZ ligand specificity determinants, revealing a hitherto unappreciated combination of specificity and adaptive plasticity inherent to PDZ domain recognition. We propose a reconceptualization of the PDZ domain in terms of a complex adaptive system representing a flexible compromise between the rigid order of exquisite specificity and the chaos of unselective promiscuity, which has evolved to mediate two mutually contradictory properties required of such higher order sub-cellular organizations as synapses, cell junctions, and others--organizational structure and organizational plasticity/adaptability. The generalization of this reconceptualization in regard to other protein interaction modules and specific protein associations is consistent with the image of the cell as a complex adaptive macromolecular system as opposed to clockwork.