Morphomechanics: goals, basic experiments and models

Morphomechanics is a branch of developmental biology, studying the generation, space-time patterns and morphogenetic role of mechanical stresses (MS) which reside in embryonic tissues. All the morphogenetically active embryonic tissues studied in this respect have been shown to bear substantial mechanical stresses of tension or pressure. MS are indispensable for organized cell movements, expression of a number of developmentally important genes and the very viability of cells. Even a temporary relaxation of MS leads to an increase in the morphological variability and asymmetry of embryonic rudiments. Moreover, MS may be among the decisive links of morphogenetic feedback required for driving forth embryonic development and providing its regular space-time patterns. We hypothesize that one such feedback is based upon the tendency of cells and tissues to hyperrestore (restore with an overshoot) their MS values after any deviations, either artificial or produced by neighboring morphogenetically active tissues. This idea is supported by a number of observations and experiments performed on the tissue and individual cell levels. We describe also the models demonstrating that a number of biologically realistic stationary shapes and propagating waves can be generated by varying the parameters of the hyperrestoration feedback loop. Morphomechanics is an important and rapidly developing branch of developmental and cell biology, being complementary to other approaches.     

Morphological characterization and molecular phylogeny of Portunoidea Rafinesque, 1815 (Crustacea Brachyura): Implications for understanding evolution of swimming capacity and revision of the family-level classification

Cheliped construction, in particular the teeth pattern on chelae fingers is considered as most important character suit (along with burrowing/swimming apparatus) for the diagnosis of Portunoidea. Heterochelic and heterodontic chelipeds with the molariform tooth in the larger chela and multi-lobed serial teeth are presumably ancestral and most common pattern for the group. New material (mostly species of Thalamitinae Paulson, 1875, Lupocyclus Adamd and White, 1848 and Portunus Weber, 1795 sensu lato) have been combined with the existing sequences from the GenBank to produce molecular phylogenetic reconstructions based on the histone H3 gene fragment and a multi-gene tree (for smaller set of species) based on partial sequences of H3, D1 region of 28S gene and mitochondrial COI gene. These reconstructions have not provided necessary support to the monophyly of Portunoidea sensu lato but indicated the presence of several monophyletic lineages, i.e. Portunidae sensu stricto, Polybiidae + Thiidae + Carcinidae + Pirimelidae, Benthochascon + Geryonidae (to lesser extent), and Ovalipes. Monophyly of the Portunidae sensu stricto is supported by both the H3 and multigene trees and morphological evidence. Swimming capacity probably evolves as a result of parallel evolution in at least three different lineages of portunoids. A new version of the family level classification of Portunoidea and a key to their families are provided with the following taxa: Geryonidae (Geryoninae + Benthochasconinae subfam. nov.), Ovalipidae fam. nov., Brusiniidae Štev?i?, 1991, Thiidae, Pirimelidae, Carcinidae McLeay, 1838 (Carcininae + Portumninae Ortmann, 1893), Polybiidae Ortmann, 1893, and Portunidae Rafinesque, 1815 sensu stricto. The most radical change in the systematics of Portunidae sensu stricto is the final recognition of the polyphyly of Portunus sensu lato and the need for revalidization and re-diagnozing of several taxa that were synonymized by Stephenson and Campbell (1959) and Stephenson (1972) under Portunus. While some subfamilies of the Portunidae (Podophthalminae Dana, 1851, Thalamitinae, and Lupocyclinae Alcock, 1895) are well supported by molecular phylogenies and the presence of morphological synapomorphies, the others need re-assessment.     

Emergent Global Patterns of Ecosystem Structure and Function from a Mechanistic General Ecosystem Model

Anthropogenic activities are causing widespread degradation of ecosystems worldwide, threatening the ecosystem services upon which all human life depends. Improved understanding of this degradation is urgently needed to improve avoidance and mitigation measures. One tool to assist these efforts is predictive models of ecosystem structure and function that are mechanistic: based on fundamental ecological principles. Here we present the first mechanistic General Ecosystem Model (GEM) of ecosystem structure and function that is both global and applies in all terrestrial and marine environments. Functional forms and parameter values were derived from the theoretical and empirical literature where possible. Simulations of the fate of all organisms with body masses between 10 µg and 150,000 kg (a range of 14 orders of magnitude) across the globe led to emergent properties at individual (e.g., growth rate), community (e.g., biomass turnover rates), ecosystem (e.g., trophic pyramids), and macroecological scales (e.g., global patterns of trophic structure) that are in general agreement with current data and theory. These properties emerged from our encoding of the biology of, and interactions among, individual organisms without any direct constraints on the properties themselves. Our results indicate that ecologists have gathered sufficient information to begin to build realistic, global, and mechanistic models of ecosystems, capable of predicting a diverse range of ecosystem properties and their response to human pressures.     

Formative capacities of mechanically stressed networks: developmental and evolutionary implications.

We present a biomechanical model of morphogenesis highlighting the extensive formative capacities of stressed networks with a very simple initial geometry. They consist of a restricted number of kinematically independent elements exerting a pressure to each other and increasing thus the local curvatures. The pressure is applied as a series of periodic impulses and is opposed by a constant quasi-elastic resistance force. Single elements can be also regarded as the half wave-lengths of the undulations determined by the mechanical properties of a given body. All of the model parameters are assumed to be evenly spread throughout a body (no prepatterns are implied). On the other hand, the model parameters can be associated with genetic factors. Thus, our model relates to as yet unsolved problem of genetic regulation of shape formation. We classify the modeled shapes according to their symmetry orders and compare them with the ancient Echinodermata and with Arthropods. Possible evolutionary and developmental implications are discussed.     

Impact of iron reduction on the metabolism of Clostridium acetobutylicum

Iron is essential for most living organisms. In addition, its biogeochemical cycling influences important processes in the geosphere (e.g., the mobilization or immobilization of trace elements and contaminants). The reduction of Fe(III) to Fe(II) can be catalysed microbially, particularly by metal-respiring bacteria utilizing Fe(III) as a terminal electron acceptor. Furthermore, Gram-positive fermentative iron reducers are known to reduce Fe(III) by using it as a sink for excess reducing equivalents, as a form of enhanced fermentation. Here, we use the Gram-positive fermentative bacterium Clostridium acetobutylicum as a model system due to its ability to reduce heavy metals. We investigated the reduction of soluble and solid iron during fermentation. We found that exogenous (resazurin, resorufin, anthraquinone-2,6-disulfonate) as well as endogenous (riboflavin) electron mediators enhance solid iron reduction. In addition, iron reduction buffers the pH, and elicits a shift in the carbon and electron flow to less reduced products relative to fermentation. This study underscores the role fermentative bacteria can play in iron cycling and provides insights into the metabolic profile of coupled fermentation and iron reduction with laboratory experiments and metabolic network modelling.