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Lappe, M.

Publications and source records attributed to Lappe, M..

10 recordsLinked to original sources

Glutamate transporter xCT is important for cGAS-dependent interferon responses to DNA and to HSV-1

Metabolic reprogramming is a key component of antiviral immunity, yet how metabolite transport regulates innate immune signaling remains incompletely understood. Here, we show that infection with herpes simplex virus 1 (HSV-1) and stimulation with cytosolic DNA induce the cellular export of glutamate via the xCT (SLC7A11) transporter and that inhibition of xCT reduces cellular resistance to viral replication. Mechanistically, xCT inhibition impaired cGAS-STING signaling by reducing DNA-induced cGAMP production, thereby diminishing type I interferon (IFN/{beta}) responses and downstream induction of interferon-stimulated genes. Interestingly, modulating intracellular glutamate levels through inhibition of other glutamate pathways, e.g., glutaminolysis or glutamate import, also affected cellular IFN responses, suggesting that glutamate is a central control knob for DNA sensing. Finally, we demonstrate that HSV-1 suppresses xCT expression via a mechanism dependent on the immediate early viral protein ICP27, thereby promoting viral replication by limiting cGAS-dependent IFN induction. Together, these findings identify xCT-dependent glutamate transport as a critical metabolic regulator of cGAS-STING-mediated antiviral immunity.

immunology↗

The role of feedback for sensorimotor decisions under risk

For goal-directed movements like throwing darts or shooting a soccer penalty, the optimal location to aim depends on the endpoint variability of an individual. Currently, there is no consensus whether people can optimize their movement planning based on information about their motor variability. Here, we tested the role of different types of feedback for movement planning under risk. We measured saccades towards a bar that consisted of a reward and a penalty region. Participants either received error-based feedback about their endpoint or reinforcement feedback about the resulting reward. We additionally manipulated the feedback schedule to assess the role of feedback frequency and whether feedback focusses on individual trials or a group of trials. Participants with trial-by-trial reinforcement feedback performed best and had the least endpoint deviation from optimality. Our results are consistent with a slow gradual drift in the participants internal aiming location under summary feedback. Feedback focusing on individual trials reduces this drift, thereby enabling consistent movement planning from one trial to the next. Our results therefore suggest that reinforcement feedback about a single movement is most effective to optimize movement planning under risk.

neuroscience↗

Flow parsing as causal source separation: A computational model for concurrent retrieval of object and self-motion information from optic flow

Optic flow, the retinal pattern of motion that is experience during self-motion contains information about ones direction of heading. If the visual scene contains other moving objects optic flow becomes a combination of self-motion and independent object motion. The global pattern due to self-motion is locally confounded, and the locally restricted object flow is the sum of components due to these different causal sources of motion. Nonetheless, humans are able to retrieve information from such flow accurately, including the direction of heading and the scene-relative motion of an object. One way to handle such complex flow is flow parsing, a process speculated to allow the brains sensitivity to optic flow to separate the causal sources of retinal motion in information due to self-motion and information due to object motion. In a computational model that retrieves object and self-motion information from optic flow, we implemented such a process of causal separation based on heading likelihood maps, whose distributions indicate the consistency of parts of the flow with self-motion alone. The flow parsing allows for concurrent estimation of heading, the detection and localization of and independently moving object, and the estimation of scene-relative motion of that object. We developed a paradigm that allows the model to perform all the different estimations while system-atically varying how the object contributes to the flow field. Simulations of that paradigm showed that the model replicates many aspects of human performance, including the dependence of heading estimation on object speed and how different object movements bias that estimation. Regarding object detection and motion estimation, the models results fit human behavioral data, the latter even for flow of reduced quality.

neuroscience↗

SILAC-based quantification reveals modulation of the immunopeptidome in BRAF and MEK inhibitor sensitive and resistant tumor cells

The immunopeptidome is constantly monitored by T cells to detect foreign or aberrant HLA peptides. It is highly dynamic and reflects the current cellular state, enabling the immune system to recognize abnormal cellular conditions, such as those present in cancer cells. To precisely determine how changes in cellular processes, such as those induced by drug treatment, affect the immunopeptidome, quantitative immunopeptidomics approaches are essential. To meet this need, we developed a pulsed SILAC-based method for quantitative immunopeptidomics. Metabolic labeling with lysine, arginine, and leucine enabled isotopic labeling of nearly all HLA peptides across all allotypes (> 90% on average). We established a data analysis workflow that integrates the de novo sequencing-based tool Peptide-PRISM for comprehensive HLA peptide identification with MaxQuant for accurate quantification. We employed this strategy to explore the modulation of the immunopeptidome upon MAPK pathway inhibition (MAPKi) and to investigate alterations associated with early cellular responses to inhibitor treatment and acquired resistance to MAPKi. Our analyses demonstrated significant changes in the immunopeptidome early during MAPKi treatment and in the resistant state. Moreover, we identified putative tumor-specific cryptic HLA peptides linked to these processes that might represent exploitable targets for cancer immunotherapy. SynopsisWe have developed a mass spectrometric method that allowed us to investigate the effects of common MAPK inhibitors on the immunopeptidome of melanoma cells. This approach has led to the discovery of new potential targets for cancer immunotherapy.

immunology↗

Eyeball translations affect saccadic eye movements beyond brainstem control

Vision requires that we rotate our eyes frequently to look at informative structures in the scene. Eye movements are planned by the brain but their execution depends on the mechanical properties of the oculomotor plant, i.e, the arrangement of eyeball position, muscle insertions and pulley locations. Therefore, the biomechanics of rotations is sensitive to eyeball translation because it changes muscle levers. Eyeball translations are little researched as they are difficult to measure with conventional techniques. Here we study the effects of eyeball translation on the coordination of gaze rotation by high-speed MRI recordings of saccadic eye movements during blinks, which are known to produce strong translations. We found that saccades during blinks massively overshoot their targets, and that these overshoots occur in a transient fashion such that the eye is back on target at the time the blink ends. These dynamic overshoots were tightly coupled to the eyeball translation, both in time and in size. Saccades made without blinks were also accompanied by small amounts of transient eyeball retraction, the size of which scaled with saccade amplitude. These findings demonstrate the complex interaction between rotation and translation movements of the eye. The mechanical consequences of eyeball translation on oculomotor control should be considered along with the neural implementation in the brain to understand the generation of eye movements and their disorders.

neuroscience↗

Fine-scale measurement of the blind spot borders

The blind spot is both a necessity and a nuisance for seeing. It is the portion of the visual field projecting to where the optic nerve crosses the retina, a region devoid of photoreceptors and hence visual input. The precise way in which vision transitions into blindness at the blind spot border is to date unknown. A chief challenge to map this transition is the incessant movement of the eye, which unavoidably smears measurements across space. In this study, we used high-resolution eye-tracking and state-of-the-art retinal stabilization to finely map the blind spot borders. Participants reported the onset of tiny high-contrast probes that were briefly flashed at precise positions around the blind spot. This method has sufficient resolution to enable mapping of blood vessels from psychophysical measurements. Our data show that, even after accounting for eye movements, the transition zones at the edges of the blind spot are considerable. On the horizontal meridian, the regions with detection rates between 80% and 20% span approximately 25% of the overall width of the blind spot. These borders also vary considerably in size across different axes. These data show that the transition from full visibility to blindness at the blind spot border is not abrupt but occurs over a broad area.

neuroscience↗

A triple distinction of cerebellar function for oculomotor learning and fatigue compensation

The cerebellum implements error-based motor learning via synaptic gain adaptation of an inverse model, i.e. the mapping of a spatial movement goal onto a motor command. Recently, we modeled the motor and perceptual changes during learning of saccadic eye movements, showing that learning is actually a threefold process. Besides motor recalibration of the inverse model (1), learning also comprises perceptual recalibration of the visuospatial target map (2) and of a forward dynamics model that estimates the saccade size from corollary discharge (3). Yet, the site of perceptual recalibration remains unclear. Here we dissociate cerebellar contributions to the three stages of learning by modeling the learning data of eight cerebellar patients and eight healthy controls. Results showed that cerebellar pathology restrains short-term recalibration of the visuospatial target map and of the inverse model while the forward dynamics model is well informed about the reduced saccade change. Moreover, patients showed uncompensated oculomotor fatigue caused by insufficient upregulation of saccade duration. According to our model, this could induce long-term perceptual compensation, consistent with the overestimation of target eccentricity found in the patients baseline data. We conclude that the cerebellum mediates short-term adaptation of the visuospatial target map and of the inverse model, especially by control of saccade duration. The forward dynamics model was not affected by cerebellar pathology. Author SummaryAchieving a fine-grained understanding of how the cerebellum continuously recalibrates our movements is an ongoing challenge in sensorimotor neuroscience. Recently, we showed that recalibration of saccadic eye movements does not only operate in motor space, i.e. by adjusting the motor command, but also in external and internal visual space, i.e. by adjusting the spatial representation of the target and the internal saccade size. For this purpose, (1) we developed a paradigm that allowed us to monitor changes of the internal saccade size estimated from trans-saccadic target localizations, and (2) we unified the three learning processes in one computational modeling framework. Here we apply this approach to the saccade learning data of patients with a neurodegenerative cerebellar disease. First, we dissociate the cerebellar role in recalibration of these three sites of learning. Second, we show how learning is transposed to saccade kinematics. Third, we provide first insights into the perceptual consequences of cerebellar pathology that, according to our model, may be a mechanism to recover from disease-specific motor deficits. Our modeling framework may help to dissociate the contribution of specific sensorimotor areas to adaptive behavior as well as to improve the understanding of learning deficits and compensatory strategies in the clinical context.

neuroscience↗

All the ways your eyes can move if you don't look: Eyeball lifting, retraction and compression during blinks

Blinks occur frequently in normal life and have increasingly been linked to perceptual and cognitive effects. However, the oculomechanics of blink-related eye movements are much less researched than other types of eye movements. While it has been observed that the eye is being pulled back into its socket during a blink, possibly due to co-contraction of extraocular muscles, this elusive eye motion has not been studied in detail due to the technical difficulties that go along with a closed eyelid. Here we use dynamic magnetic resonance imaging (MRI) to obtain videos of this motion and analyse the kinematics with the recently developed MREyeTrack algorithm. We show that the eye is not only retracted but also lifted up during a blink. For some participants we observed eyeball lifting by up to 3 mm, far exceeding the amount of translation believed to occur during natural eye movements. Slow blinks can be accompanied by large tonic rotations of up to 15{degrees}. Furthermore, we collected evidence that the co-contraction of extraocular muscles leads to a slight compression of the eyeball. These findings demonstrate the surprising complexity of ocular motility and offer new opportunities to study orbital mechanics in health and disease.

neuroscience↗

Identification of SARS-CoV2-mediated suppression of NRF2 signaling reveals a potent antiviral and anti-inflammatory activity of 4-octyl-itaconate and dimethyl fumarate

Antiviral strategies to inhibit Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV2) and the pathogenic consequences of COVID-19 are urgently required. Here we demonstrate that the NRF2 anti-oxidant gene expression pathway is suppressed in biopsies obtained from COVID-19 patients. Further, we uncover that NRF2 agonists 4-octyl-itaconate (4-OI) and the clinically approved dimethyl fumarate (DMF) induce a cellular anti-viral program, which potently inhibits replication of SARS-CoV2 across cell lines. The anti-viral program extended to inhibit the replication of several other pathogenic viruses including Herpes Simplex Virus-1 and-2, Vaccinia virus, and Zika virus through a type I interferon (IFN)-independent mechanism. In addition, induction of NRF2 by 4-OI and DMF limited host inflammatory responses to SARS-CoV2 infection associated with airway COVID-19 pathology. In conclusion, NRF2 agonists 4-OI and DMF induce a distinct IFN-independent antiviral program that is broadly effective in limiting virus replication and suppressing the pro-inflammatory responses of human pathogenic viruses, including SARS-CoV2. One Sentence SummaryNRF2 agonists 4-octyl-itaconate (4-OI) and dimethyl fumarate inhibited SARS-CoV2 replication and virus-induced inflammatory responses, as well as replication of other human pathogenic viruses.

microbiology↗

STATegra: a comprehensive multi-omics dataset of B-cell differentiation in mouse

Multi-omics approaches use a diversity of high-throughput technologies to profile the different molecular layers of living cells. Ideally, the integration of this information should result in comprehensive systems models of cellular physiology and regulation. However, most multi-omics projects still include a limited number of molecular assays and there have been very few multi-omic studies that evaluate dynamic processes such as cellular growth, development and adaptation. Hence, we lack formal analysis methods and comprehensive multi-omics datasets that can be leveraged to develop true multi-layered models for dynamic cellular systems. Here we present the STATegra multi-omics dataset that combines measurements from up to 10 different omics technologies applied to the same biological system, namely the well-studied mouse pre-B-cell differentiation. STATegra includes high-throughput measurements of chromatin structure, gene expression, proteomics and metabolomics, and it is complemented with single-cell data. To our knowledge, the STATegra collection is the most diverse multi-omics dataset describing a dynamic biological system.

bioinformatics↗