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Sudden and isolated sensory stimuli (SISS) engage the extralemniscal system and elicit widespread electrocortical responses in the brain. These responses, consisting of both time-domain transients and spectral changes, reflect a switch of the global brain state that likely prepares the organism for subsequent urgent behaviours. Crucially, SISS also elicit a short-latency phasic response in a key component of the extralemniscal system in the brainstem, the noradrenergic Locus Coeruleus (LC) nucleus. Such stimulus-evoked LC firing is associated with the electrocortical markers of extralemniscal activation. LC neurons also display burst-like firing spontaneously, i.e., without imposed sensory stimuli, for example, during quiet wakefulness, sleep, or anaesthesia. However, this phenomenon remains underexplored. We therefore measured, in freely behaving rats, the prefrontal electrocorticogram (ECoG) responses following spontaneous LC bursts. In addition, we compared these ECoG responses to those triggered by electrical LC stimulation or auditory SISS. We found that ECoG responses were proportional to the magnitude of the spontaneous LC bursts or microstimulation, and remarkably similar to those elicited by SISS. Finally, suppression of noradrenergic transmission with systemic clonidine administration attenuated the auditory-evoked ECoG response. These results suggest that LC plays a role in generating the transient brain state changes elicited by SISS.

Embryonically, the vertebrate brain begins as an approximately uniform, fluid-filled epithelial tube that undergoes rapid volumetric expansion and regionalization to form the morphologically distinct primary brain vesicles. Hydrostatic pressure from fluid secretion into the inner lumen generates tension in the neural tube that has been implicated as a potential driver of cell proliferation during these early stages of brain development. However, a quantitatively rigorous view of 3D morphology and cellular proliferation has remained elusive. Here, we provide a standardized mapping for the mechanical and biological landscape of the developing neuroepithelium along anatomical axes. Using this 3D morphometric framework in chicken embryos, we show that localized curvature characterizes compartmental boundaries. While rapid inflation would typically be expected to stretch and thin the epithelium, we find the opposite: global expansion is coupled with significant tissue thickening, identifying the early brain as an active shell. Moreover, spatial patterns of thickness remain invariant to local curvature. Our results demonstrate a decoupling of geometry and growth, showing that spatially stable distributions of tissue thickness and mitotic activity are maintained throughout massive volumetric expansion, independent of the dramatic geometric reorganization driven by luminal pressure. We conclude that, while tension in the neuroepithelium may contribute to proliferative growth at some level, biological pre-pattern likely plays a driving role in the regionalized expansion of the early embryonic brain. Why it mattersThe embryonic brain begins as a simple fluid-filled tube that undergoes rapid and heterogeneous expansion to set up the basic organizational plan of the adult brain. Errors in this process are linked to severe neurological and congenital disorders. This work investigates the biophysical basis of expansion and regionalization of the early brain, a complex three-dimensional process driven by inflation from internal fluid pressure together with active cell behaviors that ultimately produce regionally distinct growth and curvature profiles amid a complex mechanical landscape. Graphical Abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=200 SRC="FIGDIR/small/726048v1_ufig1.gif" ALT="Figure 1"> View larger version (49K): org.highwire.dtl.DTLVardef@17c442forg.highwire.dtl.DTLVardef@1609374org.highwire.dtl.DTLVardef@170c00corg.highwire.dtl.DTLVardef@15080ad_HPS_FORMAT_FIGEXP M_FIG C_FIG

Scientific models are widely used across the natural sciences as an interface between scientific theories and empirical data [1]. Such models play a key role, for example, in the study of human and animal learning, where they express algorithmic hypotheses and relate them to psychology and neuroscience data [2, 3]. These models are traditionally handcrafted by expert researchers based on existing theory or new insights. Such handcrafted models, however, are now known to fall short of capturing the full richness of behavior, even in their narrow domains [4-7]. An alternative data-driven approach has emerged, seeking to discover new insights by fitting and interpreting flexible models [8-11]. However, these tools require substantial human effort to derive insight from data, and it has been unclear how to discover new ideas from data efficiently. Here, we present DataDIVER, a general approach for automatically discovering computational models from data, and demonstrate that these models surface novel mechanistic insights into human and animal learning. Our approach delivers models that take the form of short computer programs, which are optimized both to fit data well and to be simple. These programs explicitly connect with existing theoretical frameworks and are readily understandable by human scientists. They can also be used to make novel predictions, some of which we show are borne out in re-analysis of existing data. General-purpose tools for surfacing new ideas from data, especially in combination with the large datasets that are increasingly available in many fields, stand to dramatically accelerate scientific discovery.

Existing databases of interphase chromosome conformations typically store three-dimensional coordinates of genomic segments. However, since interphase chromatin is highly dynamic, such databases are dominated by transient configurations and unstructured regions, whose positions vary continuously between cells and over time, unlike folded proteins such as globin, which adopt similar structures in every cell. These drawbacks motivated the inception of a database based on strion (a portmanteau of a string capturing structure and function). A strion concisely describes the structure and activity of all transcription units in one cell, by retaining only functionally relevant positional information. Sets of strions describing structures in different cells sampled at different times are compiled into a super-strion. Then, 46 super-strions summarise the range of structure and activity of a human cell type, including information on all transcription units, how often each co-fires and co-clusters with others in transcription factories/hubs, enhancer interactomes and small-world expression networks. Graphical abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=200 SRC="FIGDIR/small/724942v1_ufig1.gif" ALT="Figure 1"> View larger version (38K): org.highwire.dtl.DTLVardef@13a1263org.highwire.dtl.DTLVardef@18d2c78org.highwire.dtl.DTLVardef@162865corg.highwire.dtl.DTLVardef@1631d65_HPS_FORMAT_FIGEXP M_FIG C_FIG

The circadian clock genes Bmal1 and Nr1d1/2 (REV-ERB/{beta}) regulate skeletal muscle metabolism and homeostasis, yet the precise genes and mechanisms involved remain incompletely understood. Here, we perform Weighted Gene Co-expression Network Analysis (WGCNA) on skeletal muscle circadian transcriptomes with varying Bmal1 operational status to identify genes central to muscle circadian function. The largest WGCNA module, potentially under Bmal1 regulation, contains clock and muscle-specific output genes governed hierarchically by hub genes including Igf2bp2, an RNA-binding protein involved in muscle progenitor growth and maintenance. Igf2bp2 expression is rhythmic in mouse and human muscle and functional experiments in muscle-specific Bmal1 knockout mice show that Igf2bp2 is upregulated by loss of Bmal1 at ZT8 and negatively correlated with Nr1d2, suggesting de-repression through REV-ERB{beta} as a regulatory mechanism. Luciferase reporter experiments in cultured myotubes show that REV-ERB{beta}, but not REV-ERB, represses Igf2bp2 transcription and that repression is mediated by non-canonical GCC motifs in the Igf2bp2 promoter region. Together, these findings uncover a circadian Nr1d2-Igf2bp2 regulatory axis linking transcriptional and post-transcriptional regulation in skeletal muscle, with implications for muscle homeostasis. HighlightsO_LIIgf2bp2 clusters with Nr1d2 (Rev-erb{beta}) in circadian co-expression network C_LIO_LIBmal1 or Rev-erb[a]/{beta} knockout upregulates Igf2bp2 in muscle C_LIO_LIIgf2bp2 is rhythmic in WT muscle but arrhythmic in clock mutant muscle C_LIO_LIREV-ERB{beta} represses Igf2bp2 transcription in myotubes C_LIO_LIREV-ERB{beta} repression requires GCC motifs in the Igf2bp2 promoter C_LI Graphical Abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=200 SRC="FIGDIR/small/724827v1_ufig1.gif" ALT="Figure 1"> View larger version (89K): org.highwire.dtl.DTLVardef@2f569borg.highwire.dtl.DTLVardef@1df13a7org.highwire.dtl.DTLVardef@83538borg.highwire.dtl.DTLVardef@1e20983_HPS_FORMAT_FIGEXP M_FIG C_FIG

Environmental changes significantly impact the social behaviors of animals, yet individuals exhibit substantial variability in their responsiveness, known as environmental sensitivity. Understanding the biological basis of this individual variability is critical for elucidating vulnerability to stress-related and psychiatric disorders. To investigate the organism-wide physiological states linked to environmental sensitivity, we combined continuous, non-invasive RFID-based behavioral tracking with untargeted plasma metabolomics in group-housed mice undergoing spatial and social environmental restructuring. Following the environmental alteration, we observed heterogeneous behavioral shifts across individuals, enabling their operational classification into high-responsiveness mice (HRM) and low-responsiveness mice (LRM). Untargeted metabolomic profiling revealed distinct systemic metabolic signatures associated with these behavioral phenotypes. Specifically, HRM exhibited elevated levels of circulating essential and non-essential amino acids, as well as metabolites linked to one-carbon and energy metabolism. Exploratory co-variation analysis further identified plasma metabolic modules associated with individual behavioral metrics. These findings suggest that individual differences in behavioral adaptation are not solely neural phenomena but are coupled with coordinated, organism-wide metabolic adjustments. This study provides a framework for identifying candidate peripheral metabolic correlates of behavioral responsiveness to environmental and social change.

Sarcomeres, the basic repeating unit of striated muscle, are joined together by crosslinked actin filaments found at the boundaries of muscle sarcomeres, termed Z-discs. Z-discs play a key role in cardiac signalling and disease, however, the arrangement and function of many of the proteins present in the Z-disc remain to be understood. Here, we determined the organisation of 3 key proteins, ZASP, [a]-Actinin-2 and the Z1Z2 epitope of titin, located within the Z-disc. We fluorescently labelled these proteins in cardiac myofibrils using Adhirons specific to each protein and used interferometric photoactivated localization microscopy (iPALM) to obtain the 3D position of these proteins to a high precision (<10nm in x,y,z). We then used PERPL (Pattern Extraction from Relative Positions of Localisations) to analyse patterns in the relative positions of the proteins and reveal their underlying organisation. This analysis revealed that ZASP and [a]-Actinin-2 have a similar repeating organisation, but that the organisation of Z1Z2 is different.

Molecular layer interneurons (MLIs) play a crucial role in modulating the output of the cerebellar cortex through their inhibition of Purkinje cells. MLIs also inhibit other MLIs synaptically and are coupled electrically through gap junctions. While synchronization of MLIs has been observed, comprehensive understanding of the role of gap junctional coupling in shaping MLI network activity is lacking. Dendro-dendritic gap junctional coupling in MLIs involves propagation of signals to and from the dendritic gap junction location which can lead to neural synchronization. However, how this is regulated by the intrinsic electrical properties of MLIs, including dendritic properties, is poorly understood. In this study, we apply conductance-based computational modelling to examine the effect of dendritic filtering on gap junctional coupling in pairs of ball-and-stick MLI models, demonstrating that gap junctional properties, rather than the active dendritic properties of MLIs, primarily dictate gap junction-driven synchronization. By systematically reducing the ball-and-stick model to a one-compartment MLI model, we additionally investigate the role of MLI gap junctional coupling in mediating MLI network synchrony. Our results reveal that transient AMPA input drives brief network-wide synchronization, whereas NMDA-mediated elevated firing enables gap junction-dependent oscillatory synchronization that is further enhanced by MLI-MLI inhibition in a positive feedback loop, producing pronounced peaks of network coactivity resembling sensory-evoked MLI activity observed in vivo. These findings provide important insights into network dynamics of MLIs and how gap junctions shape their activity, with broader implications for other neural networks that rely on gap junctional coupling.

Adult neurogenesis in the olfactory bulb (OB) contributes to structural and functional plasticity, influencing olfactory perception, learning, and memory. Adult-born granule cells (abGCs) exhibit unique morphological, electrophysiological, and synaptic properties compared to their neonatally born counterparts, suggesting a specialized role in olfactory processing. In the OB, such processing relies both on sensory inputs from the olfactory epithelium as well as top-down cortical feedback, which encompass both glutamatergic and GABAergic projections from the olfactory cortex back to the OB. While abGCs are known to integrate both bottom-up sensory inputs and top-down cortical projections, the specific connectivity and functional influence of cortical GABAergic inputs on abGCs remain largely unexplored. In this study, we investigated whether activity of cortical GABAergic projections is modulated by olfactory learning, how they impact olfactory behavior and whether these connections selectively influence mature abGCs. Using in vivo fiber photometry following odor-reward associative conditioning, we found odor- and reward-dependent activity of cortical GABAergic projections during learning session. Furthermore, their functional role was revealed using optogenetic activation which impaired both the acquisition and the reversal of an odor-reward association. Ex vivo patch-clamp recordings demonstrated that olfactory learning potentiates cortical GABAergic inputs specifically onto abGCs, and morphological analysis confirmed that learning increases the number of cortical GABAergic synapses. These findings highlight a novel mechanism by which top-down inhibitory control from the olfactory cortex selectively targets abGC activity during olfactory learning. Our results provide new insights into the functional specialization of abGCs and their role in adaptive olfactory behaviors.

Organic carbon (OC) burial in lakes is an important component of the global carbon cycle, but the source organisms of preserved OC remain poorly resolved. Here we develop the genC pipeline, which combines sedimentary ancient DNA concentrations, read-based taxonomic assignments, and group-specific priors for DNA and cellular carbon content to derive OCDNA-projected, a semi-quantitative proxy for the magnitude and taxonomic composition of preserved sedimentary OC. We apply genC to six high-latitude lake records spanning the last 30,000 years. OCDNA-projected broadly agrees with independent proxies for total organic carbon and aquatic contribution, supporting its reliability. Our results indicate that environmental conditions, especially warming, rather than preservation alone, are the main drivers of preserved OC variation. Terrestrial sources, mainly woody plants, dominate lake sediment OC. Eukaryotic algae as well as aquatic and terrestrial bacteria become more important during the warmer Holocene. These results establish sedaDNA as a taxonomically resolved tool for reconstructing long-term changes in preserved lake-sediment OC.

T cell receptors (TCRs) are critical for immune surveillance and successful adaptive immune response against foreign antigens. TCRs drive this key arm of the immune system through recognition of peptide epitopes presented on MHC complexes. However, they are limited due to their stochastic nature and generation via genetic recombination. In silico design of functional TCRs that target defined peptide epitopes would be of considerable utility but has up until now been unsuccessful. Here, we develop an artificial intelligence (AI)-powered approach using a hybrid physics-based simulation and generative AI that successfully engineers TCRs against defined epitopes presented by MHC-I. We use this approach to design TCRs against two cancer antigens, a HERC1 neoantigen and an immunogenic neoepitope in mutant EGFR. We engineer multiple TCRs against the HERC1 neoantigen which activate T cells in response to exposure to peptide-MHC I and kill cancer cells more effectively than a patient-derived TCR. In addition, we used generative AI to design functional TCRs that target the EGFR T790M neoantigen, engineering greater specificity against the mutant sequence. We present an AI-based approach to TCR design with broad utility for efforts to engineer TCRs and for the development of new cell therapies. One sentence summaryArtificial intelligence-based approach enables the directed engineering of functional TCRs with enhanced features that target cancer neoantigens.

To elucidate the early mechanisms underlying the long-term neuroprotective effect of FLASH-RT in the normal brain, spatial transcriptomics (Nanostring) were performed after whole-brain irradiation of C57BL/6J mice with either 1 or 3 fractions of 10 Gy at 5.6x106 Gy/s (1 pulse-FLASH) or at conventional dose-rate 0.1 Gy/s. FLASH -RT induced a distinct transcriptomic signature in the CA3 and DG neurons, with upregulation of genes encoding glutamate receptors, involved in calcium signaling, long-term potentiation and mitochondrial OXPHOS. Early transcriptional upregulation of Gria gene translated into increased AMPAR protein levels at 48h in the DG and CA3 region and sustained higher AMPAR expression at 2 and 4 weeks post-FLASH. These findings support a durable activation of AMPAR. We propose a mechanism to explain FLASH-induced neuroprotection initiated by early calcium influx and subsequent sustained expression of glutamate receptor AMPAR in neurons and/or neural progenitors of the CA3, potentially contributing to long-term cognitive sparing. Graphical abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=200 SRC="FIGDIR/small/725423v1_ufig1.gif" ALT="Figure 1"> View larger version (59K): org.highwire.dtl.DTLVardef@1ae125forg.highwire.dtl.DTLVardef@138357aorg.highwire.dtl.DTLVardef@13f128dorg.highwire.dtl.DTLVardef@1db1cf6_HPS_FORMAT_FIGEXP M_FIG C_FIG HighlightsO_LIFLASH-RT induces a stronger transcriptional response in the hippocampus than the cortex. C_LIO_LIFLASH-RT induces calcium signaling, LTP and mitochondrial OXPHOS genes. C_LIO_LIEarly AMPAR upregulation leads to sustained protein expression. C_LIO_LIFLASH-RT induces a AMPAR-dependent signaling program in CA3 neurons. C_LI

Postganglionic sympathetic neurons not only regulate target organs but also their own intrinsic activity and can be further modulated by parasympathetic neurons. This crosstalk and automodulatory signalling have been implicated in cardiovascular disorders, with the majority of earlier work employing rodent models. Here, we have used human sympathetic neurons derived from induced pluripotent stem cells (hiPSCs), as a scalable human in vitro system with the aim to investigate these pathways. Efficient differentiation of hiPSCs into sympathetic neurons was confirmed using molecular characterisation for the expression of PHOX2B, DBH, TH, PRPH. We employed Ca2+ imaging and whole-cell patch-clamp electrophysiology, to examine the neuronal functional properties and found that hiPSC-derived sympathetic neurons recapitulate key physiological features of the rodent native counterparts. Most cells responded to nicotine and expressed functional 2 adrenergic and muscarinic receptors, involved in sympathetic autoregulation and parasympathetic crosstalk. We further demonstrated that 2 adrenergic and muscarinic receptors inhibit membrane excitability (increased rheobase, hyperpolarisation, reduced input resistance) and that both types of receptors converge on inwardly rectifying K+ channels (GIRK) as effectors. The GIRK blocker Tertiapin-Q significantly reduced the 2 adrenergic and muscarinic responses, while the activator ML297 mimicked their action. Analysis of mouse stellate scRNA-seq confirmed that the receptors and GIRK subtypes studied here are prominently expressed in native sympathetic neurons. Overall, our data show that GIRK channels play an important role in the regulation of sympathetic neurons excitability and that hiPSC-derived neurons provide an attractive in vitro tool for drug discovery to study sympathetic autoregulation and parasympathetic-sympathetic crosstalk. KEY POINTSO_LIhiPSC-sympathetic neurons recapitulate key cellular pathways of native counterparts C_LIO_LIThey express relevant receptors and ion channels involved in the inhibitory autoregulatory feedback and parasympathetic-sympathetic crosstalk C_LIO_LIUsing a combination of RT-qPCR and functional recordings we identified inwardly rectifying K+ channels as downstream effectors of both 2 adrenergic and M2 muscarinic receptors. We cross-validated our findings with a mouse transcriptomic dataset from thoracic sympathetic ganglia. C_LIO_LIOverall, our data suggest that hiPSC-sympathetic neurons can be employed as a human in vitro platform to study cellular pathways and for drug discovery purposes. C_LI O_FIG O_LINKSMALLFIG WIDTH=119 HEIGHT=200 SRC="FIGDIR/small/727423v1_ufig1.gif" ALT="Figure 1"> View larger version (23K): org.highwire.dtl.DTLVardef@14e37ddorg.highwire.dtl.DTLVardef@35c534org.highwire.dtl.DTLVardef@260837org.highwire.dtl.DTLVardef@e57af6_HPS_FORMAT_FIGEXP M_FIG O_FLOATNOGraphic abstract.C_FLOATNO Summary of proposed modulation of sympathetic neuron activity via 2ARs and muscarinic receptors via GIRK channels Functional recordings showed that muscarinic receptors and 2 adrenergic receptors reduce neuronal excitability, this effect was mimicked by activation of inwardly rectifying K+ channels (GIRK). Blockade of GIRK abolished the effects of both types of receptors, demonstrating that they converge on GIRK as a common effector. The muscarinic response was blocked by pertussis toxin, indicating an involvement of Gi/o downstream of the receptor, consistent with the high expression of CHRM2 by RT-qPCR. C_FIG

The endoplasmic reticulum (ER) and mitochondria maintain a dynamic structural partnership essential for pancreatic {beta}-cell homeostasis, yet the high-resolution 3D remodeling of these networks under stress conditions remains poorly defined. We employed Focused Ion Beam Scanning Electron Microscopy (FIB-SEM) to perform 3D reconstructions of INS1E cells subjected to mitochondrial respiratory chain inhibition, uncoupling, and exogenous oxidative stress. Quantitative analysis revealed that mitochondrial dysfunction induces profound ultrastructural transitions, characterized by significant luminal swelling of the ER, expansion of the perinuclear space, and mitochondrial diameter enlargement. 3D volume imaging identified a coordinated fragmentation of both ER and mitochondrial networks into discrete, spatially separated structures--a phenomenon distinct from the reticular morphology observed in control cells. The similarity between respiratory inhibition- and H2O2-induced phenotypes, together with preservation of ER structure following mitochondrial uncoupling, suggests a potential contribution of reactive oxygen species to the observed remodeling process. Despite this extensive organelle breakdown, interorganelle membrane contact sites were not only preserved but expanded under stress conditions. We further provide a quantitative description of nuclear envelope-mitochondria contact sites (NAMs), demonstrating their selective remodeling during mitochondrial dysfunction. Our findings provide a high-resolution structural framework for organelle remodeling in {beta}-cells, demonstrating that membrane contact sites are actively preserved and reorganized despite profound organelle fragmentation. Graphical abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=110 SRC="FIGDIR/small/727587v1_ufig1.gif" ALT="Figure 1"> View larger version (36K): org.highwire.dtl.DTLVardef@4f63b5org.highwire.dtl.DTLVardef@1b3dc8org.highwire.dtl.DTLVardef@7527fcorg.highwire.dtl.DTLVardef@1944f2c_HPS_FORMAT_FIGEXP M_FIG C_FIG

Cell polarity, essential for cell development and function, relies on dynamic subcellular distribution of structural and signaling molecules. Tip growth, an extreme form of polar growth, involves unidirectional expansion at the apical region of cells and requires precise spatiotemporal coordination to achieve periodic and directional growth. Understanding their spatiotemporal dynamics is critical for elucidating mechanisms and functions of cell polarity. However, manual quantification of such dynamics is extremely time-consuming, hindering advancements in the field. Current algorithms have limited power and flexibility in analyzing the distribution and dynamics of molecules and structures, particularly for tip-growing cells with oscillatory and dynamic behavior. To address this challenge, we present TipQuant, an automated analysis tool that robustly detects tips and analyzes spatiotemporal dynamics of fluorescently labeled molecules/structures on plasma membranes and in cytoplasm at apices of tip-growing cells, enabling quantitative understanding of signaling and structural components in these systems.

Behavior arises from the complex interplay between an organisms nervous system, its genetic makeup, and the environment. High-resolution, high-throughput behavioral quantification is essential for dissecting biological function and the effects of genetic perturbation, but automated analysis remains challenging. Here, we present Autobehaver, an automated behavioral analysis pipeline based on a low-cost, high-throughput recording platform that captures videos of individual Drosophila. From each video, we extracted keypoints and used a custom Transformer to assign frame-wise behavior and orientation labels. We then converted these predictions into high-dimensional per-animal feature vectors and trained XGBoost ensembles to classify animals and identify the features that separated groups. By applying SHAP analysis to the classifier ensemble, we identified the behavioral features most informative for distinguishing groups of flies. We demonstrated the approach in several ways. First, we recovered known behavioral changes associated with heat-activated dTrpA1 activity in specific neural circuits. Second, we detected age-associated behavioral changes consistent with gradual impairment of locomotor and climbing ability. Finally, we used Autobehavers classifier ensemble to place animals with intermediate phenotypes along a behavioral axis and used feature-importance analysis to reveal the behavioral features underlying those intermediate states. Together, Autobehaver provides an interpretable framework for quantitative behavioral phenotyping and comparative analysis of complex genotypes.

The majority of single cell-studies use RNA to identify the cell state. However, many RNAs are transient and decrease in response to elevated protein to control homeostasis. Thus, final cell states are largely defined by their unique and dynamic protein composition not RNA. Here a single-cell proteomics approach was used to identify the proteomic profile of human induced pluripotent stem cells (iPSCs) before and during their in vitro differentiation to motor neurons. By measuring up to 1000 proteins in each cell, novel clusters of growing iPSCs could be characterized along with a new proteomic pathway that defines motor neuron development. Interestingly, there was a dynamic and cell type-specific discordance between the protein levels and their corresponding messenger RNAs. This lays the foundation for drawing new single-cell proteomic maps of developing human tissues. IN BRIEFIn this article, we report the first single-cell proteomic maps of induced pluripotent stem cells (iPSCs) and their differentiation into motor neurons (MNs). By identifying proteomes of individual cells, we resolve iPSC and MN states, their proteomic, metabolomic and organellar heterogeneity. We show considerable, stage-specific discordance between the transcriptome and the proteome in differentiated neurons.

The small GTPase Rac1 controls cell protrusion for a wide variety of critical cell functions. Its regulation by upstream guanine exchange factors (GEFs) has been the focus of multiple studies, but regulation by the GTPase RhoG remains poorly understood. RhoG is known to activate the ELMO/DOCK180 GEF complex, which in turn interacts with Rac1. It is unclear which aspects of protrusion are controlled by RhoG, and which of RhoGs effects on protrusion are mediated by Rac1. To address these questions, we developed biosensors and optogenetic tools to activate one GTPase while observing another, and to simultaneously visualize the activity of two GTPases. New tools included a photoactivable RhoG, a RhoG biosensor, and red shifted biosensors of RhoG and Rac1. RhoG and Rac1 activation events in protrusions were spatio-temporally correlated with one another and with protrusion velocity. Causal inference indicated that RhoG indeed unidirectionally activated Rac1. Photoactivation of RhoG and Rac1 indicated that specific aspects of protrusion behavior were controlled by RhoG, and only some via Rac1. Further dissection of RhoG to Rac1 signaling through simultaneous GTPase activation and biosensor visualization showed that PA-RhoG activates Rac1 predominantly through DOCK180 and that PA-RhoG can activate Cdc42 independently of Rac1.

Animal tissues have diverse architectures and cell behaviors across the epithelial-mesenchymal spectrum. Cell adhesion mediated by classical cadherins is foundational. Cadherins nucleate complexes of dozens of proteins connecting junctions to the cytoskeleton and signaling downstream. Many junctional proteins are well-studied in epithelia, but less is known about roles during mesenchymal migration. The nascent myotubes of the pupal Drosophila testis provide an excellent model for N-cadherin mediated mesenchymal migration. We combined a proximity proteomics dataset of adherens junction proteins in mammalian epithelial cells with genome-wide shRNA libraries knocking down Drosophila genes to begin to define the subset of junctional proteins important in mesenchymal migration. While N-cadherin is predominant, E-cadherin plays a supporting role. Surprisingly, several proteins with key roles in epithelial morphogenesis, including Afadins homolog Canoe, ZO-1s homolog Polychaetoid, and Par3s homolog Bazooka play at most modest roles. Twenty-two genes with diverse cell biological roles had strong to moderate defects in testis morphogenesis. These will provide a community resource. We followed up two. The kinase Par-1 is important for migration and gap closure, with knockdown phenotypes paralleling those of myosin. The Rab GAP RN-tre does not have roles until after migration and works in parallel with N-cadherin during testis spiralization.

Gorgonopsian therapsids represent a transitional condition in the evolution of synapsid locomotion and postcranial structure. Most descriptions of gorgonopsians have focused on cranial material, however, limiting their usefulness for informing patterns of postcranial evolution on the mammal stem. While some recent work has begun to focus on postcrania, especially the pectoral girdle and forelimbs, comparatively little data are available on the pelvic girdle, hind limbs and tail. We report a new specimen of the late Permian gorgonopsian Aelurognathus tigriceps comprising a partial skull and well-preserved postcranial skeleton, including the near-complete series of dorsal vertebrae and ribs, complete pelvic girdle, hind limbs, feet, and a nearly complete tail. The tail is longer than any other published gorgonopsian. The new material presented here provides an opportunity to better establish broader patterns of morphology in the gorgonopsian postcranial skeleton.