Cells are bombarded by extrinsic signals that dynamically change in time and space. Such dynamic variations can exert profound effects on behaviors, including cellular signaling, organismal development, stem cell differentiation, normal tissue function, and disease processes such as cancer. Although classical genetic tools are well suited to introduce binary perturbations, new approaches were necessary to investigate how dynamic signal variation may regulate cell behavior. This fundamental question is increasingly being addressed with optogenetics, a field focused on engineering and harnessing light-sensitive proteins to interface with cellular signaling pathways. Channelrhodopsins defined optogenetics; however, through recent use of light-responsive proteins with myriad spectral and functional properties, practical applications of optogenetics currently encompass cell signaling, subcellular localization, and gene regulation. Now, important questions regarding signal integration within branch points of signaling networks, asymmetric cell responses to spatially restricted signals, and effects of signal dosage versus duration can be addressed. This review summarizes emerging technologies and applications within the expanding field of optogenetics.

We describe a simple strategy to control mRNA translation in both prokaryotic and eukaryotic cells which relies on a unique protein–RNA interaction. Specifically, we used the Pumilio/FBF (PUF) protein to repress translation by binding in between the ribosome binding site (RBS) and the start codon (in Escherichia coli), or by binding to the 5′ untranslated region of target mRNAs (in mammalian cells). The design principle is straightforward, the extent of translational repression can be tuned and the regulator is genetically encoded, enabling the construction of artificial signal cascades. We demonstrate that this approach can also be used to regulate polycistronic mRNAs; such regulation has rarely been achieved in previous reports. Since the regulator used in this study is a modular RNA-binding protein, which can be engineered to target different 8-nucleotide RNA sequences, our strategy could be used in the future to target endogenous mRNAs for regulating metabolic flows and signaling pathways in both prokaryotic and eukaryotic cells.

SummaryDespite extensive research on the canonical Wnt signaling pathway, the mechanism by which this signal downregulates the activity of destruction complexes and inhibits β-catenin degradation remains controversial. In particular, recent attention has focused on two main competing mechanisms—inhibition of phosphorylation and inhibition of ubiquitination. Our combined experimental and theoretical analysis demonstrates that the disassembly of a fraction of the intracellular destruction complexes results in the partial inhibition of both β-catenin phosphorylation and ubiquitination. This inhibition is spatially patterned, consistent with the relocalization of some destruction complexes to the cellular membrane upon Wnt stimulation. Moreover, in contrast to the generally accepted view that the destruction complex is highly processive, our analysis supports a distributive model, in which β-catenin can dissociate from the complex between sequential phosphorylation events. Understanding the fundamental mechanism by which Wnt signaling is regulated provides a rational basis for tuning the pathway for scientific and therapeutic purposes.

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Heterodimers synthesized by conjugating anti-Frizzled and anti-LRP6 Fabs using SpyTag–SpyCatcher chemistry activate the canonical Wnt signaling pathway.

The field of optogenetics uses genetically encoded photoswitches to modulate biological phenomena with high spatiotemporal resolution. We report a set of rationally designed optogenetic photoswitches that use the photolyase homology region of A. thaliana cryptochrome 2 (Cry2PHR) as a building block and exhibit highly efficient and tunable clustering in a blue-light dependent manner. CL6mN (Cry2-mCherry-LRP6c with N mutated PPPAP motifs) proteins were designed by mutating and/or truncating five crucial PPP­(S/T)P motifs near the C-terminus of the optogenetic Wnt activator Cry2-mCherry-LRP6c, thus eliminating its Wnt activity. Light-induced CL6mN clusters have significantly greater dissociation half-lives than clusters of wild-type Cry2PHR. Moreover, the dissociation half-lives can be tuned by varying the number of PPPAP motifs, with the half-life increasing as much as 6-fold for a variant with five motifs (CL6m5) relative to Cry2PHR. Finally, we demonstrate the compatibility of CL6mN with previously reported Cry2-based photoswitches by optogenetically activating RhoA in mammalian cells.

We study the overscreened multi-channel Kondo (MCK) model using the recently developed unitary renormalization group (URG) technique. Our results display the importance of ground state degeneracy in explaining various important properties like the breakdown of screening and the presence of local non-Fermi liquids. The impurity susceptibility of the intermediate coupling fixed point Hamiltonian in the zero-bandwidth (or star graph) limit shows a power-law divergence at low temperature, signalling its critical nature. Despite the absence of inter-channel coupling in the MCK fixed point Hamiltonian, the study of mutual information between any two channels shows non-zero correlation between them. A spectral flow analysis of the star graph reveals that the degenerate ground state manifold possesses topological quantum numbers. Upon disentangling the impurity spin from its partners in the star graph, we find the presence of a local Mott liquid arising from inter-channel scattering processes. The low energy effective Hamiltonian obtained upon adding a finite non-zero conduction bath dispersion to the star graph Hamiltonian for both the two and threechannel cases displays the presence of local non-Fermi liquids arising from inter-channel quantum fluctuations. Specifically, we confirm the presence of a local marginal Fermi liquid in the two channel case, whose properties show logarithmic scaling at low temperature as expected. Discontinuous behaviour is observed in several measures of ground state entanglement, signalling the underlying orthogonality catastrophe associated with the degenerate ground state manifold. We extend our results to underscreened and perfectly screened MCK models through duality arguments. A study of channel anisotropy under renormalisation flow reveals a series of quantum phase transitions due to the change in ground state degeneracy. Our work thus presents a template for the study of how a degenerate ground state manifold arising from symmetry and duality properties in a multichannel quantum impurity model can lead to novel multicritical phases at intermediate coupling.