A microporous metal-organic framework constructed from a 1D column made of linear trinuclear manganese secondary building units

A metal-organic framework (MOF) was prepared based on a 1D column made of a linear trinuclear manganese cluster as a secondary building unit (SBU), where the SBU is connected to two adjacent SBUs by carboxylates to form a 1D column and the column is further connected to four adjacent 1D columns via the SBUs to form a microporous MOF of pcu network topology.close7

Cell-Free Synthetic Biology Platform for Engineering Synthetic Biological Circuits and Systems

Synthetic biology brings engineering disciplines to create novel biological systems for biomedical and technological applications. The substantial growth of the synthetic biology field in the past decade is poised to transform biotechnology and medicine. To streamline design processes and facilitate debugging of complex synthetic circuits, cell-free synthetic biology approaches has reached broad research communities both in academia and industry. By recapitulating gene expression systems in vitro, cell-free expression systems offer flexibility to explore beyond the confines of living cells and allow networking of synthetic and natural systems. Here, we review the capabilities of the current cell-free platforms, focusing on nucleic acid-based molecular programs and circuit construction. We survey the recent developments including cell-free transcription– translation platforms, DNA nanostructures and circuits, and novel classes of riboregulators. The links to mathematical models and the prospects of cell-free synthetic biology platforms will also be discussed.11Yscopu

Glycogen synthase kinase 3 beta suppresses polyglutamine aggregation by inhibiting Vaccinia-related kinase 2 activity

Huntington's disease (HD) is a neurodegenerative disorder caused by an abnormal expansion of polyglutamine repeats in the N-terminal of huntingtin. The amount of aggregate-prone protein is controlled by various mechanisms, including molecular chaperones. Vaccinia-related kinase 2 (VRK2) is known to negatively regulate chaperonin TRiC, and VRK2-facilitated degradation of TRiC increases polyQ protein aggregation, which is involved in HD. We found that VRK2 activity was negatively controlled by glycogen synthase kinase 3 beta (GSK3 beta). GSK3 beta directly bound to VRK2 and inhibited the catalytic activity of VRK2 in a kinase activity-independent manner. Furthermore, GSK3 beta increased the stability of TRiC and decreased the formation of HttQ103-GFP aggregates by inhibiting VRK2. These results indicate that GSK3 beta signaling may be a regulatory mechanism of HD progression and suggest targets for further therapeutic trials for HD.1131Ysciescopu

Design and evaluation of synthetic RNA-based incoherent feed-forward loop circuits

RNA-based regulators are promising tools for building synthetic biological systems that provide a powerful platform for achieving a complex regulation of transcription and translation. Recently, de novo-designed synthetic RNA regulators, such as the small transcriptional activating RNA (STAR), toehold switch (THS), and three-way junction (3WJ) repressor, have been utilized to construct RNA-based synthetic gene circuits in living cells. In this work, we utilized these regulators to construct type 1 incoherent feed-forward loop (IFFL) circuits in vivo and explored their dynamic behaviors. A combination of a STAR and 3WJ repressor was used to construct an RNA-only IFFL circuit. However, due to the fast kinetics of RNA–RNA interactions, there was no significant timescale difference between the direct activation and the indirect inhibition, that no pulse was observed in the experiments. These findings were confirmed with mechanistic modeling and simulation results for a wider range of conditions. To increase delay in the inhibition pathway, we introduced a protein synthesis process to the circuit and designed an RNA–protein hybrid IFFL circuit using THS and TetR protein. Simulation results indicated that pulse generation could be achieved with this RNA–protein hybrid model, and this was further verified with experimental realization in E. coli. Our findings demonstrate that while RNA-based regulators excel in speed as compared to protein-based regulators, the fast reaction kinetics of RNA-based regulators could also undermine the functionality of a circuit (e.g., lack of significant timescale difference). The agreement between experiments and simulations suggests that the mechanistic modeling can help debug issues and validate the hypothesis in designing a new circuit. Moreover, the applicability of the kinetic parameters extracted from the RNA-only circuit to the RNA–protein hybrid circuit also indicates the modularity of RNA-based regulators when used in a different context. We anticipate the findings of this work to guide the future design of gene circuits that rely heavily on the dynamics of RNA-based regulators, in terms of both modeling and experimental realization

Resveratrol induces autophagy by directly inhibiting mTOR through ATP competition

Resveratrol (RSV) is a natural polyphenol that has a beneficial effect on health, and resveratrol-induced autophagy has been suggested to be a key process in mediating many beneficial effects of resveratrol, such as reduction of inflammation and induction of cancer cell death. Although various resveratrol targets have been suggested, the molecule that mediates resveratrol-induced autophagy remains unknown. Here, we demonstrate that resveratrol induces autophagy by directly inhibiting the mTOR-ULK1 pathway. We found that inhibition of mTOR activity and presence of ULK1 are required for autophagy induction by resveratrol. In line with this mTOR dependency, we found that resveratrol suppresses the viability of MCF7 cells but not of SW620 cells, which are mTOR inhibitor sensitive and insensitive cancer cells, respectively. We also found that resveratrol-induced cancer cell suppression occurred ULK1 dependently. For the mechanism of action of resveratrol on mTOR inhibition, we demonstrate that resveratrol directly inhibits mTOR. We found that resveratrol inhibits mTOR by docking onto the ATP-binding pocket of mTOR (i.e., it competes with ATP). We propose mTOR as a novel direct target of resveratrol, and inhibition of mTOR is necessary for autophagy inductionopen

Vaccinia-Related Kinase 2 Mediates Accumulation of Polyglutamine Aggregates via Negative Regulation of the Chaperonin TRiC

Misfolding of proteins containing abnormal expansions of polyglutamine (polyQ) repeats is associated with cytotoxicity in several neurodegenerative disorders, including Huntington's disease. Recently, the eukaryotic chaperonin TRiC hetero-oligomeric complex has been shown to play an important role in protecting cells against the accumulation of misfolded polyQ protein aggregates. It is essential to elucidate how TRiC function is regulated to better understand the pathological mechanism of polyQ aggregation. Here, we propose that vaccinia-related kinase 2 (VRK2) is a critical enzyme that negatively regulates TRiC. In mammalian cells, overexpression of wild-type VRK2 decreased endogenous TRiC protein levels by promoting TRiC ubiquitination, but a VRK2 kinase-dead mutant did not. Interestingly, VRK2-mediated downregulation of TRiC increased aggregate formation of a polyQ-expanded huntingtin fragment. This effect was ameliorated by rescue of TRiC protein levels. Notably, small interference RNA-mediated knockdown of VRK2 enhanced TRiC protein stability and decreased polyQ aggregation. The VRK2-mediated reduction of TRiC protein levels was subsequent to the recruitment of COP1 E3 ligase. Among the members of the COP1 E3 ligase complex, VRK2 interacted with RBX1 and increased E3 ligase activity on TRiC in vitro. Taken together, these results demonstrate that VRK2 is crucial to regulate the ubiquitination-proteosomal degradation of TRiC, which controls folding of polyglutamine proteins involved in Huntington's disease.open118Ysciescopu

Anatomical and Neurochemical Correlates of Parental Verbal Abuse: A Combined MRS—Diffusion MRI Study

Despite the critical impact of parental dialog on children who remain physically and psychologically dependent, most studies have focused on brain alterations in people exposed to moderate-to-high levels of emotional maltreatment with/without psychopathology. We measured metabolites in the pregenual anterior cingulate cortex (pgACC) acquired with single-voxel proton magnetic resonance spectroscopy and anatomical connectivity assessed with probabilistic tractography in 46 healthy young adults who experienced no-to-low level parental verbal abuse (paVA) during their childhood and adolescence. The partial least square regression (PLSR) model showed that individual variance of perceived paVA was associated with chemical properties and structural connectivity of pregenual anterior cingulate cortex (pgACC; prediction R2 = 0.23). The jackknife test was used to identify features that significantly contributed to the partial least square regression (PLSR) model; a negative association of paVA was found with myo-inositol concentration, anatomical connectivities with the right caudate and with the right transverse temporal gyrus. Of note, positive associations were also found with the left pars triangularis, left cuneus, right inferior temporal cortex, right entorhinal cortex and right amygdala. Our results showing both a negative association of frontal glial function and positive associations of anatomical connectivities in several networks associated with threat detection or visual information processing suggest both anatomical and neurochemical adaptive changes in medial frontolimbic networks to low-level paVA experiences

Microscopic observation of a liquid-liquid-(semi)solid phase in polluted PM2.5

Atmospheric aerosol particles are complex mixtures having various physicochemical properties. To predict the role and characteristics of such complex aerosol particles in air pollution and related atmospheric chemistry, our knowledge of the number and types of phases in complex aerosol particles should be improved. However, most studies on the phase behavior of aerosol particles have been conducted in the laboratory and have not used real-world aerosol particles. In this study, using a combination of optical microscopy and poke-and-flow technique, we investigated the number and types of phases of actual aerosol particles of particulate matter < 2.5 µm (PM2.5) collected on heavily polluted days in Seosan, South Korea in winter 2020–2021. From the microscopic observations at 293 K, it showed that the PM2.5 particles exist in a single liquid phase at relative humidity (RH) >∼85%, a liquid-liquid phase at ∼70% < RH <∼85%, a liquid-liquid-(semi)solid phase at ∼30% < RH <∼70%, and a (semi)solid phase at RH <∼30% upon dehydration. This reveals that three phases of atmospheric aerosol particles coexisting as liquid-liquid and liquid-liquid-(semi)solid would be the most common phases in the atmosphere considering ambient RH ranges. These observations provide fundamental properties necessary for improved predictions of air quality and aerosol chemistry such as reactive uptake of N2O5, size distributions, and mass concentrations of aerosol particles