A novel integrated extraction protocol for multi-omic studies in heavily degraded samples.

The combination of multi-omic techniques, such as genomics, transcriptomics, proteomics, metabolomics and epigenomics, has revolutionised studies in medical research. These techniques are employed to support biomarker discovery, better understand molecular pathways and identify novel drug targets. Despite concerted efforts in integrating omic datasets, there is an absence of protocols that integrate all four biomolecules in a single extraction process. Here, we demonstrate for the first time a minimally destructive integrated protocol for the simultaneous extraction of artificially degraded DNA, proteins, lipids and metabolites from pig brain samples. We used an MTBE-based approach to separate lipids and metabolites, followed by subsequent isolation of DNA and proteins. We have validated this protocol against standalone extraction protocols and show comparable or higher yields of all four biomolecules. This integrated protocol is key to facilitating the preservation of irreplaceable samples while promoting downstream analyses and successful data integration by removing bias from univariate dataset noise and varied distribution characteristics.

Transglutaminase 3 crosslinks the secreted gel-forming mucus component Mucin-2 and stabilizes the colonic mucus layer.

The colonic mucus layer is organized as a two-layered system providing a physical barrier against pathogens and simultaneously harboring the commensal flora. The factors contributing to the organization of this gel network are not well understood. In this study, the impact of transglutaminase activity on this architecture was analyzed. Here, we show that transglutaminase TGM3 is the major transglutaminase-isoform expressed and synthesized in the colon. Furthermore, intrinsic extracellular transglutaminase activity in the secreted mucus was demonstrated in vitro and ex vivo. Absence of this acyl-transferase activity resulted in faster degradation of the major mucus component the MUC2 mucin and changed the biochemical properties of mucus. Finally, TGM3-deficient mice showed an early increased susceptibility to Dextran Sodium Sulfate-induced colitis. Here, we report that natural isopeptide cross-linking by TGM3 is important for mucus homeostasis and protection of the colon from inflammation, reducing the risk of colitis.

Electrical conductivity modeling and experimental study of densely packed SWCNT networks.

Single-walled carbon nanotube (SWCNT) networks have become a subject of interest due to their ability to support structural, thermal and electrical loadings, but to date their application has been hindered due, in large part, to the inability to model macroscopic responses in an industrial product with any reasonable confidence. This paper seeks to address the relationship between macroscale electrical conductivity and the nanostructure of a dense network composed of SWCNTs and presents a uniquely formulated physics-based computational model for electrical conductivity predictions. The proposed model incorporates physics-based stochastic parameters for the individual nanotubes to construct the nanostructure such as: an experimentally obtained orientation distribution function, experimentally derived length and diameter distributions, and assumed distributions of chirality and registry of individual CNTs. Case studies are presented to investigate the relationship between macroscale conductivity and nanostructured variations in the bulk stochastic length, diameter and orientation distributions. Simulation results correspond nicely with those available in the literature for case studies of conductivity versus length and conductivity versus diameter. In addition, predictions for the increasing anisotropy of the bulk conductivity as a function of the tube orientation distribution are in reasonable agreement with our experimental results. Examples are presented to demonstrate the importance of incorporating various stochastic characteristics in bulk conductivity predictions. Finally, a design consideration for industrial applications is discussed based on localized network power emission considerations and may lend insight to the design engineer to better predict network failure under high current loading applications.

Evaluation of two fiber optic-based solar collection and distribution systems for advanced space life support.

Growing plants in an enclosed controlled environment is crucial in developing bioregenerative life-support systems (BLSS) for space applications. The major challenge currently facing a BLSS is the extensive use of highly energy-intensive electric light sources, which leads to substantial energy wastes through heat dissipations by these lamps. An alternative lighting strategy is the use of a solar irradiance collection, transmission, and distribution system (SICTDS). Two types of fiber optic-based SICTDS, a Fresnel-lens Himawari and a parabolic-mirror optical waveguide (OW) lighting system, were evaluated. The overall efficiency for the OW SICTDS of 40.5% exceeded by 75% that for the Himawari of 23.2%. The spectral distributions of the light delivered by the Himawari and the OW SICTDS were almost identical and had practically no difference from that of terrestrial solar radiation. The ratios of photosynthetically active radiation (PAR) to total emitted radiation (k) of 0.39 +/- 0.02 for the Himawari and 0.41 +/- 0.04 for the OW SICTDS were statistically indistinguishable, were not significantly different from that of 0.042 +/- 0.01 for terrestrial solar radiation, and were comparable to that of 0.35 for a high-pressure sodium (HPS) lamp. The coefficients of variation (CV) of 0.34 and 0.39 for PPF distributions, both at 50 mm X 50 mm square grid arrays, corresponding to the Himawari and the OW SICTDS, respectively, were comparable with each other but were both significantly greater than the CV of 0.08 corresponding to the HPS lamp. The average fresh weight or dry weight of lettuce grown in the solar chamber with either the Himawari or the OW SICTDS showed no statistical difference from the average fresh weight or dry weight of lettuce grown in the reference chamber with the HPS lamp. The results of this study suggest that an SICTDS could help reduce the electric power demand in a BLSS.

Measuring absorption coefficients in small volumes of highly scattering media: source-detector separations for which path lengths do not depend on scattering properties.

The noninvasive measurement of variations in absorption that are due to changes in concentrations of biochemically relevant compounds in tissue is important in many clinical settings. One problem with such measurements is that the path length traveled by the collected light through the tissue depends on the scattering properties of the tissue. We demonstrate, using both Monte Carlo simulations and experimental measurements, that for an appropriate separation between light-delivery and light-collection fibers the path length of the collected photons does not depend on scattering parameters for the range of parameters typically found in tissue. This is important for developing rapid, noninvasive, and inexpensive methods for measuring absorption changes in tissue.