Evidence for emergent behaviour in the community-scale dynamics of a fungal microcosm

A stochastic cellular automaton for modelling the dynamics of a two-species fungal microcosm is presented. The state of each cell in the automaton depends on the state of a predefined neighbourhood via a set of conditional probabilities derived from experiments conducted on pairwise combinations of species. The model is tested by detailed comparison with larger-scale experimental microcosms. By employing different hypotheses which relate the pairwise data to the conditional probabilities in the model, the nature of the local and non-local interactions in the community is explored. The hypothesis that the large-scale dynamics are a consequence of independent interactions between species in a local neighbourhood can be excluded at the 5% significance level. The form of the interdependencies is determined and it is shown that the outcome of the interactions at the local neighbourhood-scale depends on the community-scale patterning of individuals. The dynamics of the microcosm are therefore an emergent property of the system of interacting mycelia that cannot be deduced from a study of the components in isolation.     

A simple and accurate rule-based modeling framework for simulation of autocrine/paracrine stimulation of glioblastoma cell motility and proliferation by L1CAM in 2-D culture

Background

Glioblastoma multiforme (GBM) is a devastating brain cancer for which there is no known cure. Its malignancy is due to rapid cell division along with high motility and invasiveness of cells into the brain tissue. Simple 2-dimensional laboratory assays (e.g., a scratch assay) commonly are used to measure the effects of various experimental perturbations, such as treatment with chemical inhibitors. Several mathematical models have been developed to aid the understanding of the motile behavior and proliferation of GBM cells. However, many are mathematically complicated, look at multiple interdependent phenomena, and/or use modeling software not freely available to the research community. These attributes make the adoption of models and simulations of even simple 2-dimensional cell behavior an uncommon practice by cancer cell biologists.

Results

Herein, we developed an accurate, yet simple, rule-based modeling framework to describe the in vitro behavior of GBM cells that are stimulated by the L1CAM protein using freely available NetLogo software. In our model L1CAM is released by cells to act through two cell surface receptors and a point of signaling convergence to increase cell motility and proliferation. A simple graphical interface is provided so that changes can be made easily to several parameters controlling cell behavior, and behavior of the cells is viewed both pictorially and with dedicated graphs. We fully describe the hierarchical rule-based modeling framework, show simulation results under several settings, describe the accuracy compared to experimental data, and discuss the potential usefulness for predicting future experimental outcomes and for use as a teaching tool for cell biology students.

Conclusions

It is concluded that this simple modeling framework and its simulations accurately reflect much of the GBM cell motility behavior observed experimentally in vitro in the laboratory. Our framework can be modified easily to suit the needs of investigators interested in other similar intrinsic or extrinsic stimuli that influence cancer or other cell behavior. This modeling framework of a commonly used experimental motility assay (scratch assay) should be useful to both researchers of cell motility and students in a cell biology teaching laboratory.

     

Abdominal aortic aneurysm is associated with a variant in low-density lipoprotein receptor-related protein 1

Abdominal aortic aneurysm (AAA) is a common cause of morbidity and mortality and has a significant heritability. We carried out a genome-wide association discovery study of 1866 patients with AAA and 5435 controls and replication of promising signals (lead SNP with a p value < 1 × 10⁻⁵) in 2871 additional cases and 32,687 controls and performed further follow-up in 1491 AAA and 11,060 controls. In the discovery study, nine loci demonstrated association with AAA (p < 1 × 10⁻⁵). In the replication sample, the lead SNP at one of these loci, rs1466535, located within intron 1 of low-density-lipoprotein receptor-related protein 1 (LRP1) demonstrated significant association (p = 0.0042). We confirmed the association of rs1466535 and AAA in our follow-up study (p = 0.035). In a combined analysis (6228 AAA and 49182 controls), rs1466535 had a consistent effect size and direction in all sample sets (combined p = 4.52 × 10⁻¹⁰, odds ratio 1.15 [1.10–1.21]). No associations were seen for either rs1466535 or the 12q13.3 locus in independent association studies of coronary artery disease, blood pressure, diabetes, or hyperlipidaemia, suggesting that this locus is specific to AAA. Gene-expression studies demonstrated a trend toward increased LRP1 expression for the rs1466535 CC genotype in arterial tissues; there was a significant (p = 0.029) 1.19-fold (1.04–1.36) increase in LRP1 expression in CC homozygotes compared to TT homozygotes in aortic adventitia. Functional studies demonstrated that rs1466535 might alter a SREBP-1 binding site and influence enhancer activity at the locus. In conclusion, this study has identified a biologically plausible genetic variant associated specifically with AAA, and we suggest that this variant has a possible functional role in LRP1 expression.     

Detection of Anaplasma bovis in an undescribed tick species collected from the eastern rock sengi Elephantulus myurus

Ticks are important vectors of numerous pathogens causing illness, fatalities, and economic loss worldwide. Infectious disease episodes are increasing, and novel tick-borne pathogens are described frequently. Identification of novel reservoir hosts and vectors of tick-borne pathogens is essential if control measures are to be successful. In South Africa, the eastern rock sengi, Elephantulus myurus , hosts a number of tick species of veterinary importance. Despite this, there remains a paucity of information regarding the tick fauna of this species, the pathogen associations of ticks that it hosts, and its role as a reservoir host of tick-borne pathogens. The current study documents the tick fauna of E. myurus and sympatric small mammal species in Limpopo Province, South Africa. The pathogen associations of ticks hosted by elephant shrews were also investigated by PCR screening of engorged nymphs for a broad range of bacterial and protozoan tick-borne infections, including Borrelia burgdorferi sensu lato and members of Apicomplexa and the order Rickettsiales. There were marked differences in tick species and abundance among host species. Elephantulus myurus was heavily, and predominantly, parasitized by an as-yet undescribed tick species that we identify as Rhipicephalus sp. near warburtoni. PCR and sequence analysis revealed the presence of Anaplasma bovis in this tick species, which may have consequences for livestock production and conservation efforts in the area where this tick species occurs.     

Economic valuation of kelp forests in northern Chile: values of goods and services of the ecosystem

Kelp beds, besides being one of the most important benthic resources in northern Chile, provide a variety of environmental goods and services. In order to evaluate economically the wild kelp populations in northern Chile (26° to 32° S) more than simply their commercial value as a source of raw materials for alginate extraction, we used several economic indicators to holistically assess the value of a group of brown seaweeds of economic importance, Lessonia spp. and Macrocystis pyrifera: (1) market value of biomass as a source of raw material for extraction of alginic acid, (2) market value of associated species of economic importance, (3) value as a source of scientific information, (4) value as a climate buffer (CO₂ capture and release of O₂), (5) value of associated biodiversity (non-commercial species), (6) value as cultural heritage and (7) value as a reservoir of biodiversity. Existence values of kelp beds which estimate the willingness of citizens to pay and work without payment to preserve the ecosystem were calculated using the contingent valuation technique. The results indicate that kelp beds in northern Chile have a total value of US $540 million. Of this total, kelp fishery accounts for 75 % and associated-species fisheries account for 15 %. In this context, the economic value of Chilean kelp beds is mainly associated with the industry of alginate extraction. By contrast, existence value as a source of scientific information or environmental buffer for CO₂ capture or O₂ production represents only 9 % of the total value, representing a very low relative importance to society. The economic valuation of coastal resources and marine ecosystems is a complementary tool for decision making and implementation of public policies related to the conservation and sustainable exploitation of renewable resources and their ecosystems.     

Prostaglandin synthesis inhibition reduces platelet aggregation in diabetes mellitus

Platelet aggregation, platelet prostaglandin precursor fatty acids, glycaemia and lipid levels were studied in a group of insulin dependent diabetics whilst taking Aspirin (900 mg daily) and Dipyridamole (300 mg daily) and again two months after discontinuing this treatment.     

“Sicca Complex” in Liver Disease

Sixty-three patients with liver disease were studied for the presence of the components of Sjögren''s syndrome. The “sicca complex” (that is, patients without arthritis) was detected in 42% of patients with active chronic hepatitis, 72% with primary biliary cirrhosis, and 38% with cryptogenic cirrhosis. One patient with active chronic hepatitis and one with primary biliary cirrhosis had rheumatoid arthritis. No evidence of Sjögren''s syndrome was detected in seven patients with alcoholic cirrhosis. It is suggested that the sicca complex and autoimmune liver disease may be part of a systemic disorder in which immunological mechanisms are concerned in the pathogenesis.     

The Influence of CO2 on the Metabolism of Rhizome Tissue in Iris pseudacorus

In vitro experiments showed that concentrations of CO₂ above 6 per cent inhibited succinate oxidation; 30–10 per cent of succinate oxidation may be blocked in the presence of 12 per cent CO₂. Storage of rhizome cores in CO₂ increased the levels of all the main acids except malic. The amino acids, aspartate, glutamate and alanine, also increased in amounts under these conditions. Cores fix CO₂ probably via the reaction phosphoenolpyruvate to oxaloacetate. Raised CO₂ levels increased the rate of diminution of carbohydrate, but carbon itself was conserved due to a reduction in CO₂ output.