Nutrient control of eukaryote cell growth: a systems biology study in yeast

<p>Abstract</p> <p>Background</p> <p>To elucidate the biological processes affected by changes in growth rate and nutrient availability, we have performed a comprehensive analysis of the transcriptome, proteome and metabolome responses of chemostat cultures of the yeast, <it>Saccharomyces cerevisiae</it>, growing at a range of growth rates and in four different nutrient-limiting conditions.</p> <p>Results</p> <p>We find significant changes in expression for many genes in each of the four nutrient-limited conditions tested. We also observe several processes that respond differently to changes in growth rate and are specific to each nutrient-limiting condition. These include carbohydrate storage, mitochondrial function, ribosome synthesis, and phosphate transport. Integrating transcriptome data with proteome measurements allows us to identify previously unrecognized examples of post-transcriptional regulation in response to both nutrient and growth-rate signals.</p> <p>Conclusions</p> <p>Our results emphasize the unique properties of carbon metabolism and the carbon substrate, the limitation of which induces significant changes in gene regulation at the transcriptional and post-transcriptional level, as well as altering how many genes respond to growth rate. By comparison, the responses to growth limitation by other nutrients involve a smaller set of genes that participate in specific pathways.</p> <p>See associated commentary <url>http://www.biomedcentral.com/1741-7007/8/62</url></p

Which Aspects of Social Support Enhance Positive Mental Health in the Context of Intimate Partner Violence?

While there is evidence that social support can mitigate mental illness symptoms associated with intimate partner violence (IPV), there is a need to explore if social support can promote positive mental health. In this New Zealand (NZ) population-based study of women who had experienced physical and/or sexual violence (n = 453), structural equation modeling (SEM) showed that most facets of social support (friends, family, and neighbors) had a significant correlation with each dimension of positive mental health, as measured by Keyes’ Mental Health Continuum Short Form (MHC-SF). Safety from IPV (no recent IPV experience) is a prerequisite before social support can assist women to attain positive mental health. Further work is required to ensure friends, family, and communities have the knowledge and resources to provide effective social support

Nonlinear behaviour of epoxy and epoxy-based nanocomposites: an integrated experimental and computational analysis

The focus of this study is on the nonlinear mechanical properties of epoxy and epoxy-based nanocomposites, exploring frequency and strain amplitude dependency. Nanocomposite samples of epoxy are reinforced with fumed silica (FS), halloysite nanotubes (HNT) and Albipox 1000 rubber (Evonik) nanoparticles. Considering these particles have different geometries and stiffnesses, they are expected to have significantly different influences on the mechanics of the resulting composite. To enhance the reliability of the results and to reveal the impact of nanofillers on the mechanics of the material more distinctly, the manufacturing process is designed to be the same for all the specimens within the same material groups to eliminate the effects of the manufacturing process. The comprehensive characterization process consists of Fourier-Transform InfraRed Spectroscopy (FTIR), Scanning Electron Microscopy (SEM) and Dynamic Mechanical Analysis (DMA). The DMA tests are designed so that the material properties are measured depending on the vibration frequency and strain amplitude. Finally, the characterized nonlinear dynamic properties of these nanocomposites are used as the input material properties into a numerical model. In this simulation, a cantilever beam with representative nonlinear material properties, for these nanocomposites, is created, as example and its forced response is plotted under the same levels of excitation in the frequency domain. Key effects of the different nanofillers are identified using the resonance behavior, primarily focusing on the stiffness and damping of the epoxy-based nanocomposites. These experimental and numerical procedures followed show the significant impact of the nanoparticle reinforcements on the nonlinear nature of these epoxy-based composites

Characterisation and mechanical modelling of polyacrylonitrile-based nanocomposite membranes reinforced with silica nanoparticles

In this study, neat polyacrylonitrile (PAN) and fumed silica (FS)-doped PAN membranes (0.1, 0.5 and 1 wt% doped PAN/FS) are prepared using the phase inversion method and are characterised extensively. According to the Fourier Transform Infrared (FTIR) spectroscopy analysis, the addition of FS to the neat PAN membrane and the added amount changed the stresses in the membrane structure. The Scanning Electron Microscope (SEM) results show that the addition of FS increased the porosity of the membrane. The water content of all fabricated membranes varied between 50% and 88.8%, their porosity ranged between 62.1% and 90%, and the average pore size ranged between 20.1 and 21.8 nm. While the neat PAN membrane’s pure water flux is 299.8 L/m2 h, it increased by 26% with the addition of 0.5 wt% FS. Furthermore, thermal gravimetric analysis (TGA) and differential thermal analysis (DTA) techniques are used to investigate the membranes’ thermal properties. Finally, the mechanical characterisation of manufactured membranes is performed experimentally with tensile testing under dry and wet conditions. To be able to provide further explanation to the explored mechanics of the membranes, numerical methods, namely the finite element method and Mori–Tanaka mean-field homogenisation are performed. The mechanical characterisation results show that FS reinforcement increases the membrane rigidity and wet membranes exhibit more compliant behaviour compared to dry membranes

Halloysite nanotube-enhanced polyacrylonitrile ultrafiltration membranes: fabrication, characterization, and performance evaluation

This research focuses on the production and characterization of pristine polyacrylonitrile (PAN) as well as halloysite nanotube (HNT)-doped PAN ultrafiltration (UF) membranes via the phase inversion technique. Membranes containing 0.1, 0.5, and 1% wt HNT in 16% wt PAN are fabricated, and their chemical compositions are examined using Fourier transform infrared (FTIR) spectroscopy. Scanning electron microscopy (SEM) is utilized to characterize the membranes’ surface and cross-sectional morphologies. Atomic force microscopy (AFM) is employed to assess the roughness of the PAN/HNT membrane. Thermal characterization is conducted using thermal gravimetric analysis (TGA) and differential thermal analysis (DTA), while contact angle and water content measurements reveal the hydrophilic/hydrophobic properties. The pure water flux (PWF) performance of the porous UF water filtration membranes is evaluated at 3 bar, with porosity and mean pore size calculations. The iron (Fe), manganese (Mn), and total organic carbon (TOC) removal efficiencies of PAN/HNT membranes from dam water are examined, and the surfaces of fouled membranes are investigated by using SEM post-treatment. Mechanical characterization encompasses tensile testing, the Mori–Tanaka homogenization approach, and finite element analysis. The findings offer valuable insights into the impact of HNT doping on PAN membrane characteristics and performance, which will inform future membrane development initiatives

Spectral correlations in a random distributed feedback fibre laser

Random distributed feedback fibre lasers belong to the class of random lasers, where the feedback is provided by amplified Rayleigh scattering on sub-micron refractive index inhomogenities randomly distributed over the fibre length. Despite the elastic nature of Rayleigh scattering, the feedback mechanism has been insofar deemed incoherent, which corresponds to the commonly observed smooth generation spectra. Here, using a real-time spectral measurement technique based on a scanning Fabry-Pérot interferometer, we observe long-living narrowband components in the random fibre laser's spectrum. Statistical analysis of the ∼104 single-scan spectra reveals a preferential interspacing for the components and their anticorrelation in intensities. Furthermore, using mutual information analysis, we confirm the existence of nonlinear correlations between different parts of the random fibre laser spectra. The existence of such narrowband spectral components, together with their observed correlations, establishes a long-missing parallel between the fields of random fibre lasers and conventional random lasers

Conservation by trans-border cooperation: population genetic structure and diversity of geoffroy’s bat (Myotis emarginatus) at its north-western european range edge

In the European Union, all bat species are strictly protected and member states must ensure their conservation. However, if populations are genetically structured, conservation units that correspond to whole countries may be too large, putting small populations with specific conservation requirements at risk. Geoffroy’s bat (Myotis emarginatus) has undergone well-documented declines at its north-western European range edge between the 1960 and 1990s and is considered to be negatively affected by habitat fragmentation. Here we analysed the species’ genetic population structure and diversity to identify subpopulations with reduced genetic diversity and to scientifically inform conservation management. We generated 811 microsatellite-based genetic profiles obtained from 42 European nursery colonies and analysed a total of 932 sequences of the hypervariable region II of the mitochondrial control region sampled from across Europe. While two geographically widespread genetic populations were inferred to be present in north-western Europe, both nuclear and mitochondrial genetic diversity were lowest in the areas that had experienced a decline during the last century. A microsatellite-based analysis of demographic history did not permit, however, to unequivocally link that reduced genetic diversity to the population contraction event. Given the large geographic extent of the genetic populations, preserving the connectivity of mating sites requires concerted conservation efforts across multiple political jurisdictions. Genetic monitoring ought to be done on a regular basis to ensure that large-scale connectivity is maintained and further loss of genetic diversity is prevented

Toward community standards and software for whole-cell modeling

Whole-cell (WC) modeling is a promising tool for biological research, bioengineering, and medicine. However, substantial work remains to create accurate, comprehensive models of complex cells. Methods: We organized the 2015 Whole-Cell Modeling Summer School to teach WC modeling and evaluate the need for new WC modeling standards and software by recoding a recently published WC model in SBML. Results: Our analysis revealed several challenges to representing WC models using the current standards. Conclusion: We, therefore, propose several new WC modeling standards, software, and databases. Significance:We anticipate that these new standards and software will enable more comprehensive models

Tau Structures

Tau is a microtubule-associated protein that plays an important role in axonal stabilization, neuronal development, and neuronal polarity. In this review, we focus on the primary, secondary, tertiary, and quaternary tau structures. We describe the structure of tau from its specific residues until its conformation in dimers, oligomers, and larger polymers in physiological and pathological situations