The Evolutionary Reorganization of Ontogeny and Origin of Multicellularity

The formation of morphogenetic mechanisms during emergence of multicellularity is discussed in this article

Developing an ontological sandbox : investigating multi-level modelling’s possible Metaphysical Structures

One of the central concerns of the multi-level modelling (MLM) community is the hierarchy of classifications that appear in conceptual models; what these are, how they are linked and how they should be organised into levels and modelled. Though there has been significant work done in this area, we believe that it could be enhanced by introducing a systematic way to investigate the ontological nature and requirements that underlie the frameworks and tools proposed by the community to support MLM (such as Orthogonal Classification Architecture and Melanee). In this paper, we introduce a key component for the investigation and understanding of the ontological requirements, an ontological sandbox. This is a conceptual framework for investigating and comparing multiple variations of possible ontologies – without having to commit to any of them – isolated from a full commitment to any foundational ontology. We discuss the sandbox framework as well as walking through an example of how it can be used to investigate a simple ontology. The example, despite its simplicity, illustrates how the constructional approach can help to expose and explain the metaphysical structures used in ontologies, and so reveal the underlying nature of MLM levelling

On the structure of the seminal receptacle in cyclopids (Copepoda, Cyclopoida). [Translation from: Informatsionnyi Byulleten Biologiya Vnutrennikh Vod (6) 26-31, 1970.]

The seminal bag, or seminal receptacle, forms a characteristic organ of cyclopids, serving for retention of the sperms discharged from the spermatophores. The structure of the seminal receptacle, more precisely its form, is fairly widely used in diagnosis and undoubtedly can be more widely applied in the systematics of the group. Within the limits of the family Cyclopidae it is possible to distinguish crustaceans with three basic types of seminal bag. The differences consist of the position which this organ occupies in the genital segment. of one species, we carried out a series of observations on its formation in ontogenesis and during the life of the adult stage. As material for observation the study used laboratory cultures of three species; Acanthocyclops americanus (Marsh) from the plankton of the Moscow River, Cyclops vicinus Uljan and Mesocyclops leuckarti Glaus from the plankton of the channel section of the upper part of the Gorkovsk reservoir. The author concluded that the irreversibility of the changes in the seminal receptacle presents the possibility of utilising this structure as one of the indicators of the growth of the individual

Correlation with basic differentiation processes of neurons

The development of the spinal cord involves the proliferation of neurons, their migration to well-defined areas, fiber outgrowth and synapse formation. The present study was designed to correlate the spatiotemporal pattern of expression of synaptophysin, an integral membrane protein of small synaptic vesicles, with these basic processes occurring during the embryonic development of the rat spinal cord. Thoracic segments of spinal cords from embryonic days 12, 14, 16, 18, 20 and of adult spinal cords were studied. S1 nuclease protection assays and immunoblots revealed minute amounts of specific mRNA and synaptophysin at embryonic day 12. There was a steep increase of mRNA between embryonic days 14 and 16, after which levels reached a plateau. A rise in the amount of synaptophysin in the spinal cord occurred between embryonic days 12 and 14, and the levels changed only slightly until the end of embryonic development. Even higher levels of synaptophysin, found in the adult spinal cord, may indicate that its biosynthesis continued after birth. In situ hybridization histochemistry revealed the localization of specific synaptophysin mRNA in the neuroepithelium. However, immunocytochemistry failed to detect synaptophysin in the neuroepithelial cells. Following migration of the neuroblasts, synaptophysin was found in neurons concomitantly with the onset of fiber outgrowth. Thus, already at embryonic day 12, outgrowing fibers of the dorsal root sensory neurons and of motoneurons were synaptophysin positive. From embryonic day 14 throughout the prenatal period, strong synaptophysin immunoreactivity was seen in the ventrolateral and dorsal parts of the marginal layer. Most likely this staining pattern indicates transient functional synaptic contacts because, in the adult spinal cord, the corresponding region, the white matter, exhibited only faint synaptophysin immunoreactivity. In the intermediate layer of the embryonic spinal cord, which corresponds to the gray matter of the adult spinal cord, synaptophysin-positive fibers were observed prior to the formation of functional synapses. The latter are most likely permanent, since synaptophysin in the adult spinal cord is mainly confined to the gray matter. Our data (i) show transcription and translation of synaptophysin within the neurons of the spinal cord and correlate these processes with proliferation, migration, fiber outgrowth and the formation of transient or permanent synapses, and (ii) prove that synaptophysin is a marker for fiber outgrowth in addition to synapse formation

Anergy in self-directed B lymphocytes from a statistical mechanics perspective

The ability of the adaptive immune system to discriminate between self and non-self mainly stems from the ontogenic clonal-deletion of lymphocytes expressing strong binding affinity with self-peptides. However, some self-directed lymphocytes may evade selection and still be harmless due to a mechanism called clonal anergy. As for B lymphocytes, two major explanations for anergy developed over three decades: according to "Varela theory", it stems from a proper orchestration of the whole B-repertoire, in such a way that self-reactive clones, due to intensive interactions and feed-back from other clones, display more inertia to mount a response. On the other hand, according to the `two-signal model", which has prevailed nowadays, self-reacting cells are not stimulated by helper lymphocytes and the absence of such signaling yields anergy. The first result we present, achieved through disordered statistical mechanics, shows that helper cells do not prompt the activation and proliferation of a certain sub-group of B cells, which turn out to be just those broadly interacting, hence it merges the two approaches as a whole (in particular, Varela theory is then contained into the two-signal model). As a second result, we outline a minimal topological architecture for the B-world, where highly connected clones are self-directed as a natural consequence of an ontogenetic learning; this provides a mathematical framework to Varela perspective. As a consequence of these two achievements, clonal deletion and clonal anergy can be seen as two inter-playing aspects of the same phenomenon too

Organization and evolution of synthetic idiotypic networks

We introduce a class of weighted graphs whose properties are meant to mimic the topological features of idiotypic networks, namely the interaction networks involving the B-core of the immune system. Each node is endowed with a bit-string representing the idiotypic specificity of the corresponding B cell and a proper distance between any couple of bit-strings provides the coupling strength between the two nodes. We show that a biased distribution of the entries in bit-strings can yield fringes in the (weighted) degree distribution, small-worlds features, and scaling laws, in agreement with experimental findings. We also investigate the role of ageing, thought of as a progressive increase in the degree of bias in bit-strings, and we show that it can possibly induce mild percolation phenomena, which are investigated too.Comment: 13 page