Genome-Wide Gene Expression Analysis in Cancer Cells Reveals 3D Growth to Affect ECM and Processes Associated with Cell Adhesion but Not DNA Repair

Cell morphology determines cell behavior, signal transduction, protein-protein interaction, and responsiveness to external stimuli. In cancer, these functions profoundly contribute to resistance mechanisms to radio- and chemotherapy. With regard to this aspect, this study compared the genome wide gene expression in exponentially growing cell lines from different tumor entities, lung carcinoma and squamous cell carcinoma, under more physiological three-dimensional (3D) versus monolayer cell culture conditions. Whole genome cDNA microarray analysis was accomplished using the Affymetrix HG U133 Plus 2.0 gene chip. Significance analysis of microarray (SAM) and t-test analysis revealed significant changes in gene expression profiles of 3D relative to 2D cell culture conditions. These changes affected the extracellular matrix and were mainly associated with biological processes like tissue development, cell adhesion, immune system and defense response in contrast to terms related to DNA repair, which lacked significant alterations. Selected genes were verified by semi-quantitative RT-PCR and Western blotting. Additionally, we show that 3D growth mediates a significant increase in tumor cell radio- and chemoresistance relative to 2D. Our findings show significant gene expression differences between 3D and 2D cell culture systems and indicate that cellular responsiveness to external stress such as ionizing radiation and chemotherapeutics is essentially influenced by differential expression of genes involved in the regulation of integrin signaling, cell shape and cell-cell contact

Aboveground Herbivory Shapes the Biomass Distribution and Flux of Soil Invertebrates

Contains fulltext : 72659.pdf ( ) (Open Access)Background Living soil invertebrates provide a universal currency for quality that integrates physical and chemical variables with biogeography as the invertebrates reflect their habitat and most ecological changes occurring therein. The specific goal was the identification of “reference” states for soil sustainability and ecosystem functioning in grazed vs. ungrazed sites. Methodology/Principal Findings Bacterial cells were counted by fluorescent staining and combined direct microscopy and automatic image analysis; invertebrates (nematodes, mites, insects, oligochaetes) were sampled and their body size measured individually to allow allometric scaling. Numerical allometry analyses food webs by a direct comparison of weight averages of components and thus might characterize the detrital soil food webs of our 135 sites regardless of taxonomy. Sharp differences in the frequency distributions are shown. Overall higher biomasses of invertebrates occur in grasslands, and all larger soil organisms differed remarkably. Conclusions/Significance Strong statistical evidence supports a hypothesis explaining from an allometric perspective how the faunal biomass distribution and the energetic flux are affected by livestock, nutrient availability and land use. Our aim is to propose faunal biomass flux and biomass distribution as quantitative descriptors of soil community composition and function, and to illustrate the application of these allometric indicators to soil systems.7 p

Auditory event-related potentials

Auditory event related potentials are electric potentials (AERP, AEP) and magnetic fields (AEF) generated by the synchronous activity of large neural populations in the brain, which are time-locked to some actual or expected sound event

Fruit tracking, frugivore satiation, and their consequences for seed dispersal

Vertebrate frugivore communities are easily satiated by abundant fruit supplies and, contrary to abiotic dispersal agents, typically disperse only part of the available seed pool. This frugivore satiation is likely to be a widespread phenomenon and should be an influential predictor of plants’ ability to disperse their offspring to suitable establishment sites; yet it has never been systematically quantified. Here I investigate patterns of fruit abundance, frugivore activity and frugivore satiation, and their consequences for seed dispersal in the fleshy-fruited tree Frangula alnus. Based on constant-effort seed trapping conducted over 3 years, I assess densities of total and frugivore-consumed seedfall across two spatial (within/between populations) and two temporal (within/between ripening seasons) scales. Furthermore, I examine relationships between fruit abundance and the amount of seeds that are actually dispersed away from fruiting trees. Frugivore activity tightly matched fruit abundance, although some differences existed between scales. This marked fruit tracking did not prevent a significant frugivore satiation, however, and only 53% of the available fruit crops were actually consumed. The extent of satiation varied most at the within-population level, likely due to the territorial behaviour of important frugivore species. In contrast, levels of satiation remained remarkably invariable through time, suggesting that frugivores behave as opportunists and closely adjust the composition of their diet to the available food supply. Overall, greater fruit abundance resulted in a higher proportion of seeds falling beneath fruiting trees, but it also helped increase the (absolute) number of seeds dispersed. This study shows that frugivore satiation can be an important phenomenon even when frugivores tightly track fruit abundance. Its negative effects on recruitment may be attenuated, however, if greater fruit crops help increase population-wide frugivore activity and the amount of seeds being dispersed to suitable establishment sites